I think it depends on what you chose to do instead. D20 couldn’t take any AP science class her senior year because the periods conflicted with her DE French 5 class and orchestra (which was the root of most ECs and an instrument she had been playing for 8 years). It didn’t seem to be an issue for her but FL is still a core class and she doubled up and took both AP social studies offerings for that year.
With your grade history, I would be more concerned that it would be because you didn’t meet whatever prerequisites your school had in their course selection process. Our HS, for example, states you have to have a 90 or better in a class to be able to take an AP version of the next one in succession. If your GC mentioned the scheduling difficulties, a college would find it more believable than you reporting it yourself.