The regulations require the application of antidegradation to general permits when they are first developed and if they are changed when they are renewed. It will be significantly harder to get a permitting agency to apply antidegradation to each “notice of intent” to be covered under the general permit.
Very few general permits include procedures to protect outstanding or high quality waters. If you believe an activity covered by a general permit is degrading high quality or outstanding waters or harming existing uses and should be subject to an antidegradation review, make the case that the activity requires an individual permit.