If you're looking for a way to mount unmounted stamps onto acrylic handles, check out the companies called "The Angel Company" or "Close to My Heart". I don't remember which it is, but one of them has acrylic handles and a special type of mounting stuff that work over and over again, so it does NOT need to be applied to the stamp every time it is used.
I personally have NOT used this stuff, but some people think it is absolutely the best stuff in the world. I actually prefer the wood mounts.
I buy about 90% of my stamps and accessories from Stampin Up, so I am able to cut them close and mount them myself. I do NOT like the foam mounted stamps very well; if I do happen to find a foam mounted stamp that I really like, I'll often take it apart and mount it on a scrap of wood so that it's wood mounted. Also, if I buy already mounted stamps from someplace and find that the stamp is not closely trimmed, I'll often times take it apart, trim it and then put it back together.
I have found that with mounting on wood, if I position the stamp down and to the right (when stamp is face up) then when I stamp with it, the image is down and to the left; this makes it very easy for me to position without needing something special to position the stamp in exactly the right place. (A left handed stamper may choose to have the stamp positioned opposite).
As far as storing your unmounted stamps, you seem to have a good system in place. I've also heard that breaking the black plastic out of the inside of CD cases and storing unmounted stamps in CD cases works. Again, I have NOT tried this because I prefer the wood mountings.
I know space is an issue for some, and I must say that I do not have as much space as I'd like for storing and using my stamping supplies, but I make room for the wood mounts because, to me, it seems much easier to be able to take the stamp out and use it without having the hassle of mounting it on an acrylic handle first.
Happy Stamping!