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Critical Cleaning

Critical Cleaning for Compounding Pharmacies

A long-form compliance resource by SOSCleanroom
USP <797> / USP <800> readiness: facilities, certification, environmental monitoring, cleaning/disinfection programs, PPE, and documentation discipline

Sterile compounding compliance is not a “cleaning products” problem. It is a state-of-control problem — demonstrated through facility design, certification, validated methods, environmental monitoring, and disciplined documentation. Your consumables (wipers, swabs, disinfectants, alcohol, gloves, and garments) matter because they are the repeatable interface between your SOPs and the real world.

Risk statement (use this to anchor decisions)
Cleanroom performance in compounding is a risk-management problem: you are controlling viable and nonviable contamination, chemical residues, and—when hazardous drugs are involved—occupational exposure. The control strategy is driven by product risk, process risk, people risk, and a defined compliance scope (USP <797>, USP <800>, state board expectations, and FDA posture).
Where SOSCleanroom fits
SOSCleanroom supports compounding programs with best-in-class cleanroom consumables, fast shipping, excellent customer service, fair pricing, and continuity of supply so your team is not forced into last-minute substitutions. We do not write your SOPs; we provide practical SOP suggestions/templates, selection logic, and product standardization guidance that helps pharmacies reduce variation and stay audit-ready. SOS is a multi-award-winning supplier with over 40 years of controlled-environment experience.

1) Compliance map: what governs sterile compounding control
Authority / standard Why it matters What it typically drives Consumables impact
USP <797> Primary sterile compounding control framework for facilities, personnel, cleaning/disinfection, and monitoring. Zone design, PEC/SEC expectations, cleaning and disinfecting method discipline, competency and evidence-of-control. Sterile, low-linting wipers/swabs; controlled sterile alcohol; documented disinfectants; packaging/traceability discipline.
USP <800> Hazardous drug (HD) handling framework focused on protecting workers and preventing contamination spread. DDC sequences (deactivation/decontamination/cleaning), PPE (gloves/gowns), containment and spill response. Chemo-tested gloves, compatible gowns/coveralls, HD-specific wipes/mop heads, defined waste and change-out rules.
State board of pharmacy / accreditor Often enforces USP expectations and may add documentation/testing requirements. Certification frequency, competency records, monitoring thresholds, inspection readiness. Lot/expiry controls; approved product lists; substitution controls; storage/labeling discipline.
FDA posture (503A/503B) & guidance FDA evaluates insanitary conditions and, for 503B, cGMP expectations apply. Deviation investigation discipline, cleaning/disinfection rigor, documentation quality, CAPA readiness. Higher scrutiny on “uncontrolled” products (unlabeled spray bottles, consumer wipes, unknown lots).
NIOSH / OSHA / EPA (HD + disinfection context) NIOSH defines/updates hazardous drug lists; OSHA addresses worker protection; EPA registers disinfectants (including sporicidal claims). HD classification and PPE expectations; choice of sporicidal chemistries; label-based dwell times and intended use sites. Chemo-rated gloves/gowns; HD wipe discipline; using registered disinfectants appropriate to your surfaces and zones.
Practical reality
Enforcement and inspection posture can vary by state and accreditor. A defensible program does not chase “minimums.” It builds a repeatable method, documents it, and can show trending, response to excursions, and evidence that staff execute the method the same way every shift.

2) Facility, airflow intent, and certification: how “cleanroom” becomes defensible

A cleanroom is not a room with HEPA filters. It is a controlled space with defined particle performance, airflow intent, pressure relationships, and a qualification/certification program that proves the controls work — then verifies they keep working. In compounding, this includes your primary engineering control (PEC) and the surrounding secondary engineering controls (SEC).

Facility controls that matter most for compounding
  • Air cleanliness classification: room classification is based on particle concentration performance (ISO 14644-1 principles apply).
  • Airflow intent: how air moves in the PEC and room matters. People placement, reach, staging, and “where you park supplies” can defeat good engineering.
  • Pressure and flow discipline: pressure relationships and one-way flows reduce cross-contamination (personnel flow, material flow, waste flow).
  • Recovery and operational impact: a space can pass at-rest tests and still struggle operationally if work practices create turbulence and repeated intrusions.
  • Certification evidence: your certification reports and corrective actions are part of the compliance narrative.
Certification tip pharmacies can use immediately
Ask your certifier which test guide they follow for sterile compounding certification reporting consistency (many align to CETA application guides). Then ensure your internal logs (cleaning, monitoring, repairs) map to the same equipment and room identifiers used in certification reports. That simple alignment reduces “paper gaps” during inspections.

3) Environmental monitoring: trending is compliance, not just sampling

Environmental monitoring (EM) becomes meaningful when it is trended, reviewed, and tied to action. Pharmacies often “collect samples” but do not close the loop: What did we see? What changed? What did we do? How do we prevent recurrence?

A practical EM structure (inspection-friendly)
  1. Define sampling locations by risk: ISO-critical touchpoints, high-touch surfaces, pass-through interiors, and gowning interfaces.
  2. Define cadence by zone and behavior: higher-risk zones more frequent; adjust when workflows change.
  3. Trend by organism and location: “repeat offender” sites signal resident contamination or technique breakdown.
  4. Link excursions to response: cleaning reset, sporicidal event, retraining, facility repairs, or workflow changes — documented with dates and sign-off.
  5. Keep EM records audit-ready: easy retrieval, clear ownership, and documented review intervals.
What we see and have learned from our customers
  • “We sample, but we don’t trend.” Inspectors and accreditors look for review and response — not just test results.
  • Excursions repeat at the same sites. That often points to seams, corners, cart handles, pass-through interiors, and gowning benches — not “random microbes.”
  • Process changes happen without EM updates. New shift patterns, new traffic routes, or new equipment can change contamination dynamics fast.

4) Cleaning and disinfection: the method that stands up in an investigation

Cleaning and disinfection is a method, not a product. Your best chemistry will fail if soil remains, if contact time is not achieved, or if technique spreads contamination from dirty to clean. The core operational goal is to keep high-risk surfaces in a known state of control and to generate documentation that is defensible when an excursion occurs.

The sequence that reduces variability
  • Step 1 — Clean: remove soil/residue so the disinfectant can contact the surface uniformly.
  • Step 2 — Disinfect: apply approved disinfectant with correct coverage and wet contact time.
  • Step 3 — Alcohol step (where applicable): use sterile alcohol as your routine final step in ISO-critical workflows if your procedure defines it.
  • Step 4 — Sporicidal cadence: periodic and event-driven sporicidal “reset” to control spore burden and resident flora risks.
Technique details that drive outcomes (high-impact)
  • Low-linting materials: select wipers and swabs for shedding control and compatibility. Nothing is truly lint-free; aim for low-linting and controlled extractables.
  • Fold discipline: manage wipe faces intentionally. Change faces frequently; do not “stretch” a loaded face across multiple surfaces.
  • Pattern: clean-to-dirty, top-to-bottom, and defined directional passes to avoid redistributing contamination.
  • Contact time: train for “wet for full dwell time.” If it dries early, the claim may not be achieved in practice—build re-wet rules into the method.
  • No-spray rule in ISO-critical spaces: in PECs, controlled wipe application reduces aerosols/overspray and is easier to standardize and document.

5) USP <797>: what pharmacies should operationalize for day-to-day compliance

USP <797> is the sterile compounding backbone. Even when local enforcement is uneven, the “language of control” used by regulators, accreditors, and health systems often maps to USP expectations: cleaning/disinfection method discipline, competency, and evidence that the space stays in control over time (not just at certification).

Dates that matter
USP published the revised <797> on November 1, 2022, with an official date of November 1, 2023. Some jurisdictions adopt on different timelines; document your local applicability and your internal implementation plan.
The <797> outcomes you must be able to demonstrate
  • ISO-critical surface control: PEC interior surfaces are cleaned and disinfected with a repeatable method, correct materials, and documented completion.
  • Personnel competency evidence: staff demonstrate consistent technique (hand hygiene, garbing discipline, and aseptic behaviors that preserve airflow intent).
  • Material introduction discipline: what enters the room is controlled, wiped down, and staged to avoid contaminating critical zones.
  • Monitoring and response: you can show EM review, trending, and documented response to excursions.
  • Controlled substitutions: you have an approved list of wipers/swabs/chemistries and a documented substitution process.
Consumables that tend to reduce compliance risk
In ISO-critical workflows, sterile, low-linting wipers; controlled sterile alcohol; and cleanroom-grade gloves with disciplined packaging reduce variability. When teams use consumer sprays, pump tops, and unlabeled bottles in critical areas, they often create preventable contamination and documentation gaps.

6) USP <800>: hazardous drugs, DDC sequences, and worker protection that holds up

If you handle hazardous drugs, your surface program must control both contamination and exposure. USP <800> became official December 1, 2019. The hazardous drug universe is not static; it is updated over time (NIOSH publishes lists used widely by healthcare).

Start with HD scope and classification
  • Identify HDs: maintain a current hazardous drug inventory (many organizations anchor to the NIOSH list).
  • Define where HDs are received, stored, compounded, and disposed: these steps define where DDC and PPE controls apply.
  • Train to behaviors, not posters: the most common failures are inconsistent glove changes, incomplete deactivation/decontamination steps, and unclear spill responses.
DDC in plain language (method logic)
Deactivation reduces HD activity on surfaces where applicable for the drug and chemistry.
Decontamination removes HD residue from surfaces (think “lift and remove,” not “spread and smear”).
Cleaning removes remaining residues and supports the effectiveness of later disinfection steps.
Disinfection (in sterile areas) is performed as required to control viable contamination — but it is not a substitute for decontamination.
Event-driven triggers that should tighten HD controls
  • Spills, glove tears, or visible residues.
  • Workflow changes (new HDs, new volumes, new staff, new equipment, new shift patterns).
  • Monitoring signals or recurring incidents that suggest “residue persistence.”

7) PPE, gloves, and garments: standardize the human barrier (Ansell focus)

People are often the dominant contamination source in compounding cleanrooms. Gloves and garments are not an afterthought; they are contamination controls and, for HD work, worker-protection controls. The fastest way to reduce variation is to standardize a short list by zone and task, then train and document execution.

Gloves: decide by zone + task + risk
  • Sterile vs. non-sterile: ISO-critical compounding commonly drives sterile glove programs to reduce avoidable risk and strengthen traceability.
  • Material selection: nitrile vs. latex vs. polychloroprene (neoprene) should match dexterity, comfort, allergen profile, and chemistry exposure.
  • HD work: confirm chemotherapy drug handling suitability for your use case, and standardize double-gloving where required by your program.
  • Packaging discipline: wallet/pouch systems that support controlled opening help reduce handling variability at the hood.
Program need Ansell (BioClean) direction Why it helps compliance SOSCleanroom link
Routine ISO-critical work Sterile nitrile cleanroom gloves Strong baseline balance of dexterity and barrier; sterile packaging and lot discipline support investigation defensibility. Ansell sterile nitrile gloves
HD exposure and chemical demands Sterile nitrile lines positioned for chemical/chemo exposure (verify against your HD program requirements) Reduces risk when HD handling is part of workflow; supports PPE consistency and change-out rules. Browse Ansell gloves
Alternative material needs
(comfort/tactility/chemistry)
Sterile polychloroprene (neoprene) cleanroom gloves Supports programs where staff comfort and tactility are yield drivers and where glove material selection is part of risk control. Ansell gloves catalog
Garments: control shedding, reduce adjustment touches, and support HD protection
  • Low-linting and cleanroom compatibility: garments reduce particle shedding and fiber transfer during movement.
  • Fit and closure controls: hoods, protective flaps, thumb loops, and sealed closures reduce exposure gaps and repeated “adjustment touches.”
  • HD context: align gowns/coveralls to your hazardous drug risk and procedure (PPE is a core control in USP <800> programs).

8) Wipers and swabs: selection logic that protects ISO surfaces and reduces residue risk

Wipers and swabs are performance tools. In compounding, they must remove soil, deliver chemistry consistently, avoid shedding, and avoid leaving residues that complicate disinfection and investigations. The more critical the zone, the more sealed edges, controlled manufacturing, sterility (where required), and traceability matter.

Wiper families (what to choose and why)
  • Polyester (knit/synthetic): strong low-linting baseline and chemical resistance for critical surfaces.
  • Microfiber/microdenier: helps on scratch-sensitive surfaces and residue removal where haze/film affects outcomes.
  • Cellulose/polyester blends: “workhorse” sorption for lower-risk areas and spills while maintaining controlled shedding.
  • Polypropylene (often pre-wetted): consistent solvent delivery formats and controlled wetness to reduce variation.
  • Format drives behavior: pre-wetted reduces bottle variability; sterile formats reduce ISO-critical handling risk and improve documentation discipline.
Swabs (when the wipe can’t reach)
  • Ports, hinges, seams, and corners: swabs make the method complete. If you never clean the seam, it becomes the reservoir.
  • Head material by task: polyester knit (low background), foam (precision solvent work), and specialty geometries for tight access points.
  • Traceability cues: favor cleanroom-intended, lot-controlled swabs where documentation and repeatability matter.

9) Cleanroom-grade alcohol: why sterile, controlled alcohol is the standard

Risk statement: In ISO-classified and sterile compounding environments, alcohol is not “just alcohol.” Uncontrolled solvent quality and uncontrolled delivery (consumer bottles, triggers, and pump tops) can introduce particles, residues, variability, and documentation gaps that undermine state of control.

Why alcohol is used
  • Fast-acting against many vegetative organisms when applied correctly.
  • Often leaves minimal residue when properly specified and applied.
  • Important limitation: alcohol is not reliably sporicidal.
Why general-purpose alcohol does not belong in ISO-critical zones
  • Sterility and packaging: general-purpose alcohol is typically not sterile and not packaged for ISO-critical handling.
  • Particle risk from delivery components: consumer nozzles and pump tops can shed particles and become contamination reservoirs at the interface.
  • Impurity and residue risk: denaturants and uncontrolled water quality can leave films and increase variability.
  • Traceability gaps: missing lot/expiry documentation complicates investigations and change control.
Operator-ready best practices
  • PEC rule: do not spray in the hood. Apply alcohol using sterile, low-linting wipes/applicators to control aerosols and overspray.
  • Sequence: clean first, then disinfect. Alcohol is not a substitute for cleaning when soils are present.
  • Drying: allow surfaces to dry before resuming compounding to reduce recontamination and pooling risk.

10) Sporicidal disinfectants: where they fit, and when they are needed

Risk statement: If a contamination-control program relies only on non-sporicidal disinfectants, bacterial spores and other resistant forms can persist on surfaces, seed recurring contamination, and drive long-cycle resident flora problems that routine chemistries may not reliably eliminate.

Layered program model
  1. Clean: remove soils/residues so chemistry contacts the surface.
  2. Routine disinfect: daily/shift control for vegetative organisms.
  3. Sterile alcohol (as applicable): routine ISO-surface step; not sporicidal.
  4. Periodic + event-driven sporicide: reduces spore burden and provides a deliberate reset mechanism.
When sporicide is needed
  • Routine cadence: define a minimum schedule for classified areas (often monthly or risk-based by zone).
  • After viable excursions: adverse trends, repeated mold recoveries, recurring Bacillus, resident flora signals.
  • After disruptive events: maintenance intrusions, construction, HVAC upset, water leaks, drain backups, ceiling disturbance, power outages.
  • After procedure breakdowns: gowning breaches, uncontrolled traffic, improper material introduction, spill events beyond the initial footprint.
Technique that makes sporicides work
  • Pre-clean first: sporicides do not reliably “cut through” heavy films.
  • Wet contact time: “wet for full dwell time” must be explicit; include re-wet rules.
  • Prefer wipe application in critical zones: controlled wiping reduces aerosolization and improves repeatability.
  • Residue management: many sporicides leave films; define when to follow with sterile water and/or sterile alcohol (based on your compatibility and validation approach).
  • Compatibility and safety: specify do-not-use surfaces, PPE, ventilation notes, and spill response for selected chemistry.
Shop sporicides: Sporicides

11) Documentation discipline: the difference between “we do it” and “we can prove it”

Documentation is not paperwork for its own sake. In an excursion, documentation is the mechanism that narrows scope, protects patients, protects staff, and speeds recovery. Strong programs document the method at the point of performance and tie it to certification identifiers and monitoring locations.

Minimum documentation most pharmacies need for defensible control
  • Approved product list: disinfectants, sporicides, alcohol, wipers, swabs, gloves, garments — by zone and task.
  • Lot/expiry controls: how you receive, store, stage, and retire expired materials; what is allowed in the cleanroom.
  • Cleaning logs: completion by zone with method cues (sequence, chemistry, contact time acknowledgment where required).
  • EM records: results + review + trending + documented response.
  • Training/competency: initial and ongoing competency evidence, direct observations, and retraining triggers.
  • Deviation/CAPA: event description, scope, containment, root-cause rationale, corrective action, and effectiveness check.
Small habit that prevents big audit pain
Do not allow “mystery bottles” or “unlabeled wipes” in controlled areas. Standardize packaging, label at point-of-use, and retire expired lots. Most inspection headaches start with uncontrolled materials.

12) SOP suggestions (templates you can adapt — SOSCleanroom does not author your SOPs)

Use the following as a checklist for your own procedures. These items are written as “what a good SOP covers,” not as a prescriptive SOP. Align details (frequency, sites, thresholds) to your facility design, certifier guidance, risk assessment, and local enforcement expectations.

A. Cleaning & disinfection procedure should define
  • Zones and surfaces with unique identifiers that match certification reports.
  • Sequence: clean → disinfect → alcohol step (where applicable) → sporicidal cadence/reset.
  • Approved chemistries and compatible substrates (wipers/swabs) for each zone.
  • No-spray rules for PECs and controlled wipe application requirements.
  • Contact time rules (wet for full dwell) and re-wet instructions.
  • Residue-management step after sporicide when required.
  • Documentation: what is recorded, where, and by whom; what requires second-person verification.
B. HD (USP <800>) procedure should define
  • HD inventory management and how you update the list.
  • DDC workflow: deactivation → decontamination → cleaning (plus disinfection for sterile areas as applicable).
  • PPE by task: gloves, gowns/coveralls, eye/respiratory protection where applicable.
  • Spill response, waste flow, and “what gets removed from the room” rules.
  • Change-out triggers: glove tears, task changes, leaving the room, visible residue events.
C. Competency and standard work should define
  • Direct observation checklists (hand hygiene, garbing, wipe technique, staging discipline).
  • Requalification triggers (new staff, extended absence, excursion trends, process changes).
  • “Stop the line” authority: when staff must pause compounding and escalate.

13) Inspection and audit checklist (print this as a self-audit tool)
Control area What an auditor expects to see Common gap Practical fix
Facility certification Current certification reports; corrective actions documented; alignment to room/equipment IDs. Report exists but actions are not closed or not linked to internal logs. Map equipment/room IDs to log headings; keep a “certification-to-CAPA” page.
Cleaning/disinfection Defined sequence, materials, and dwell time; logs completed at time of action. Spray bottles in ISO-critical areas; inconsistent dwell time practice. Controlled wipe application; pre-wetted or controlled alcohol delivery; add dwell-time cue to training.
EM trending Results reviewed, trended, and linked to response actions. Data collected but not reviewed; repeat sites not addressed. Monthly EM review sign-off; site-level corrective action rules.
Materials control Approved list, lot/expiry control, substitution process. “Whatever is available” substitutions; expired lots in use. Short approved list by zone; receiving checklist; remove expired products immediately.
HD controls (if applicable) HD inventory, DDC steps, PPE compliance, spill response. DDC steps unclear; PPE inconsistent; residue events not documented. Zone-based HD playbook; standardized gloves/gowns; drill spill response and document.

FAQ
Is alcohol sporicidal?
No. Alcohols are not reliably sporicidal. Use a layered program with periodic and event-driven sporicidal resets for spore burden control.
Why can’t we spray alcohol in the hood?
Spraying increases aerosols and overspray risk and is harder to standardize. Controlled wipe application is typically more repeatable and easier to document in ISO-critical work.
What is the most common cause of repeat viable contamination?
Persistent reservoirs (seams, corners, pass-through interiors, carts/handles, gowning interfaces) plus inconsistent technique (wipe-face reuse, under-wetting, missed dwell time, and “quick fixes” that skip cleaning).
How do we reduce inspection risk quickly?
Standardize materials by zone (wipers/swabs/chemistries/gloves/garments), eliminate unlabeled bottles and consumer packaging in controlled areas, document EM review and response, and align logs to certification identifiers.
Do all pharmacies follow the same enforcement timeline?
No. Enforcement can vary by state and accreditor. A defensible program documents local applicability and demonstrates consistent, evidence-based control regardless of enforcement variability.