I can confirm this causes is issues in iOS9 web views based on somebody at my company trying to do exactly that with display block to none and back. In one method they did it on like a dozen elements causing an entire app to crash to desktop. Looks like iOS9's renderer isn't too picky about how it handles properties that aren't on a continuum that it pulls in from requestAnimationFrame handlers. Browsers seem smart enough to just set the target on the last frame.
Visibility:hidden doesn't make elements unclickable or pull them out of flow, FYI. You want display:none for that.
