Audit uses of FeatureFlag::isEnabledAndIgnoreFCV()(QO)

According to documentation here and here, we should prefer to use FeatureFlag::isEnabled() over FeatureFlag::isEnabledAndIgnoreFCV() because it will prevent upgrade/downgrade issues. There are a couple of occurrences of FeatureFlag::isEnabledAndIgnoreFCV() in query code where we may not want to ignore FCV. This ticket is to audit our feature flag checks and make any changes to ensure we're following this guidance.