Well, then those issues still appear to be limited to where you live, mysteriously enough. Misalignment of free caps is easier to achieve if anything. It is in both cases a matter of technique if you really insist on storing opened bottles horizontally, which always has the risks of spills. Blame physics.

Removing caps in recycling shouldn't be a big problem, probably make it even easier as the small caps can be collected more reliably. What is much harder to do is sorting sand and caps at the beach and get the caps out of the forest.