Though it is possible for the chlorine to get consumed by pollen quickly, I would be surprised if it as fast as combining with ammonia or combining with algae, but I don't have experience with pollen so it's certainly possible. The rate of reaction is partly going to be related to the surface area to volume ratio so very small items will consume chlorine more quickly than larger ones, assuming the same total volume. Pollen is pretty small, but I would have thought it would have remained clumped (and I'm probably wrong about that). Of course, you've been dealing with this over many days so that's plenty of time for chlorine to combine with pollen, I would think.
As for detecting ammonia, probably the easiest thing to do is to measure the Combined Chlorine level very soon after adding the chlorine. Chlorine combines with ammonia VERY quickly so that in a matter of seconds it should be fully combined (it won't be at "breakpoint" -- that takes far longer). So, taking a sample of pool water upon opening and adding some chlorine to it (not too much -- say 3-5 ppm FC) and measuring CCs will tell you you've got ammonia. Even if it's after opening, if you do a "before" and "after" of FC and CC measurements then if the CC almost immediately develops (i.e. add FC gets nearly fully converted to CC), then that's almost certainly from ammonia. As for smell, you won't smell the ammonia that much, but after you've added chlorine you should smell chloramine and it won't be a "clean" smell like bleach.
Anyway, you are doing just fine and shouldn't blame yourself. If you have a high CYA level upon closing and the chlorine level gets to zero, then you may end up with a LOT of ammonia upon opening. So the only options are 1) not to have the CYA as high upon closing, 2) maintain chlorine levels through the winter (if possible), 3) add PolyQuat 60 upon closing (do this AFTER shocking with chlorine when the FC level drops back down a bit -- according to Buckman Labs). The PolyQuat will prevent algae from forming, but probably won't do much about CYA getting converted to ammonia from bacteria (unless the PolyQuat inhibits bacteria -- it just might hinder them through the same "clumping" and ion blocking mechanism that occurs with algae, it just won't be quick).
Richard
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