Suppose you had to put some food somewhere, and the normal shelf is full. Someone says "Put it on the empty shelf above instead." You reply, "But how will I find it? No, I'll unscrew the shelves and move the empty shelf down to where the full shelf currently is." ;-)
Seriously, if you're never leaving the basic first-position chords (C/G/D/A/E), your hand isn't moving so a capo really shouldn't be a problem to get the hang of. The movements between chords and finger positions are identical. Just work at it, and you'll get there. For sure, if you only ever play with a capo once in a blue moon, it might feel funny, but if you make a habit of practising with it then it'll become second nature.
In reality, with nylon strings I don't think it's going to be any kind of problem to tune a couple of steps higher. But it's unnecessary.