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ISO 22000 guide

ISO 22000 Stage 1 and Stage 2 audit: what auditors check on the floor, day by day

Clause by clause: ISO 22000:2018 requirements: every clause explained →

Stage 1 decides whether your food safety management system is ready for audit; Stage 2 tests it on the production floor while the plant runs. What auditors review first, how PRPs, CCPs and traceability are sampled, and who takes the certification decision.

  • Updated September 2026
  • 8-minute read
  • Part of the ISO 22000 hub

Key points

  • Stage 1 is the certification body's readiness review: scope, prerequisite programmes, the hazard analysis, the hazard control plan, legal requirements, internal audit and management review.
  • Stage 2 happens on the production floor while the plant is running, because PRPs, CCP and OPRP monitoring and operator practice can only be judged in operation.
  • Expect a traceability exercise: the auditor picks a lot and asks you to follow it back to raw materials and forward to customers, against the clock.
  • Findings cite a requirement and the evidence behind it. The audit team recommends; people at the certification body who did not audit your plant decide.

What does Stage 1 check in a food safety system?

Initial certification always runs in two stages. ISO/IEC 17021-1, the standard certification bodies are accredited to, sets the rules, and ISO 22003-1 adds food-specific requirements. For a food plant, most certification bodies carry out Stage 1 at the site, since conditions on the floor matter as much as the files; your audit plan states where it takes place. Expect these areas.

  • Scope: products, process lines, sites and shifts named precisely, with the food chain category the body has assigned and any outsourced processes identified.
  • Prerequisite programmes: which PRPs you selected, the ISO 22002 part or other reference behind them, and whether the building and equipment can support them.
  • Hazard analysis: product descriptions, intended use, flow diagrams confirmed on the floor, and a documented analysis of every step by a named food safety team.
  • Hazard control plan: CCPs with critical limits, OPRPs with action criteria, the validation behind each control measure, and monitoring methods and frequencies.
  • Legal and customer requirements: the food law, licences and specifications that apply, and how you know you meet them.
  • Internal audit and management review: both completed, with reports and minutes the auditor can read.

The output is a Stage 1 report stating readiness and listing concerns that could be graded as nonconformities at Stage 2. The auditor records weaknesses but does not advise, which is what separates it from a gap analysis, Sterling's first engagement stage. How to pick the body in the first place is covered in choosing an ISO 22000 certification body.

The gap between Stage 1 and Stage 2

ISO/IEC 17021-1 requires the interval to leave enough time to resolve the concerns raised, and the certification body may revise its Stage 2 arrangements in the light of what it saw. Under FSSC 22000 the two stages may be no more than six months apart, or Stage 1 must be repeated. Use the weeks for three things.

  • Close every concern with evidence, not a promise: a revised hazard analysis, a completed validation, a repaired floor drain photographed and signed off.
  • Keep production running under the plan. Stage 2 samples records from this period, so monitoring sheets, verification results and calibration certificates must keep accumulating.
  • Change nothing without your own change control. A new critical limit introduced in a hurry, without validation, becomes the next finding.

Stage 2 on the production floor

Stage 2 judges whether the system is implemented and effective across the whole scope. In food that cannot be done from an office: the auditor needs to see product being made. Schedule it on production days, with representative lines and higher-risk products running.

On the floorWhat the auditor doesWhat usually goes wrong
PRP observationWalks the site: hygiene zoning, hand washing, cleaning, pest control, maintenance, glass and hard plastics, allergen segregation, storageA cleaning schedule marked complete for equipment still visibly soiled; pest devices missing from the site map
CCP monitoringWatches a check being made, then compares live readings with the record and the critical limitReadings entered in advance or at shift end; a thermometer or metal detector with no current verification
OPRP monitoringChecks the action criteria, the frequency and what happened when a criterion was not metAction criteria nobody on the line can state; failures corrected but never recorded
Operator interviewsAsks the person at the step what they check, why, and what they do when it goes wrongOperators who know the form but not the hazard; no one sure who can stop the line
Traceability exerciseSelects a finished lot and asks for its raw materials, packaging, process records and dispatch detailsQuantities that do not reconcile; supplier lot numbers not captured at receipt

Management system clauses are audited too. Typical questions for each area are listed in our ISO 22000 audit questions guide.

How auditors sample in a food plant

No auditor reads every record. ISO/IEC 17021-1 expects conclusions drawn from samples and confirmed by interview, observation and review of documents and records.

  • Products and HACCP studies: the number of HACCP studies helps set audit time under ISO 22003-1, and the auditor will usually trace at least one study end to end, from flow diagram to live monitoring.
  • Shifts: if you run nights or weekends, expect a question about how the plan works then, and possibly a request to see an early or late shift.
  • Records over time: dates chosen by the auditor, not by you, often around a deviation or a complaint.
  • Several sites: whether sites may be sampled depends on the food chain category; the scope guide explains why many manufacturers see every site audited.

Example: a single-site plant, day by day

Audit time is calculated by the certification body using the method in ISO 22003-1, from the food chain category, the number of HACCP studies and the number of employees; see the cost guide. The table below is an example only: one auditor, one plant with two lines and three HACCP studies, a one-day Stage 1 and a two-day Stage 2. Your own plan, with the auditors' names, arrives before each stage.

WhenWhat is auditedWho is neededEvidence sampled
Stage 1, morningOpening meeting; scope, context, policy, legal requirements; short site tourTop management, food safety team leaderScope statement, licences, site plan, PRP list
Stage 1, afternoonHazard analysis, hazard control plan, validation, internal audit, management review; Stage 1 conclusionsFood safety teamFlow diagrams, hazard analysis, validation files, audit report, review minutes
Stage 2, day 1 startOpening meeting; changes since Stage 1; concerns closedTop management, food safety teamEvidence of closure for each Stage 1 concern
Stage 2, day 1 restReceiving, storage and production floor during operation; PRP observation; CCP and OPRP checks at the lineLine supervisors, operators, QALive monitoring, cleaning and pest records, allergen controls, calibration status
Stage 2, day 2 morningTraceability exercise; nonconforming product; mock recall; supplier approval; complaintsQA, stores, purchasing, dispatchOne lot traced both ways; hold and release files; recall test report
Stage 2, day 2 middayVerification analysis, competence, objectives, internal audit follow-up, corrective actionFood safety team leader, HRSwab and test trends, training records, corrective action log
Stage 2, day 2 afternoonAuditor's review; closing meetingTop management, food safety teamFindings, grades, deadlines, recommendation

Closing meeting, findings and the decision

Each nonconformity names the requirement not met, describes what was seen and cites the evidence; it is discussed with you before the closing meeting. The auditor may not suggest the cause or the solution. A major nonconformity puts the system's ability to achieve its intended results in doubt, such as a CCP operating without a validated limit; a minor one does not. The closing meeting presents the findings and the recommendation, reminds you that the audit rested on samples, and sets deadlines for your corrections and corrective action plan. How to write and close them is in our nonconformities guide.

The certification decision is taken by competent people at the certification body who took no part in the audit. They need corrections and corrective actions for any major nonconformity reviewed, accepted and verified, and plans for minor ones accepted; a major left unverified six months after the last Stage 2 day means another Stage 2. After the decision the three-year cycle begins, described in our surveillance and recertification guide.

How Sterling prepares your plant for the certification audit

A trace run, a mock recall timed and every CCP checked on the line before the auditor arrives.

Sterling's expert and experienced consultants walk your floor with the food safety team, test the hazard control plan against live monitoring, run a traceability exercise and a mock recall, and complete the internal audit and management review with you. Records sit in Effivity, included with the engagement at no additional cost, ready for whichever lot or date the auditor picks. We ensure successful certification for our clients. Sterling does not certify: the independent, accredited certification body audits and decides.

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ISO 22000 Stage 1 and Stage 2 audit: questions buyers ask

Is the ISO 22000 Stage 1 audit done on site?

For a food plant it usually is, because the auditor needs to see whether the premises and equipment can support your PRPs. The audit plan the certification body sends beforehand states the location and any activities it will cover remotely.

Does production have to be running during the ISO 22000 Stage 2 audit?

Yes, plan for normal production on Stage 2 days. Monitoring, hygiene practice and operator knowledge can only be verified in operation, and an idle plant may lead the body to schedule a further visit.

How long can we wait between Stage 1 and Stage 2 for ISO 22000?

Long enough to resolve the Stage 1 concerns, but not indefinitely. ISO/IEC 17021-1 sets no fixed maximum; FSSC 22000 limits the gap to six months, and certification bodies often apply a similar limit of their own.

Can an ISO 22000 certification audit be unannounced?

Not the initial Stage 1 and Stage 2, which are planned with you in advance. FSSC 22000 adds at least one unannounced surveillance audit in every three-year cycle after certification.

What if a CCP goes out of limits while the auditor is watching?

Follow your procedure exactly as written. An auditor who sees a deviation detected, the product held and the correction recorded has seen the system work; hiding it is what produces a major finding.

ISO 22000 implementation

ISO 22000 requirements

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