if your best 50 frames are creating very nice images, then you may want to cut it off like you say to less images.
if you move the slider back and forth after the initial alignment and quality sort, you can get a good ideas where the images start to go wayward.
limit the number of images there and then further reduce at the stacking stage.
obviously less images to play with means less wavelets for worse seeing, but well worth the testing.
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