A solution to the problem of one long menu might be an area where you can move things back and forth. For example if you if you have the perfect amount of 2 herbs making a potion then you will not need the two herbs in the list of things to sell and can move them or even hide them. Not an ultimate answer maybe but it will definitely tidy things up.
After the thief returned, Rapid Throw was still missing and I had to sell it and repurchase it all again, the cost was fairly negligible at this point but a bit annoying and lucky I noticed or I'd be a skill down.
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Sorry for that, this will be fixed in the next update!