Your reported symptoms keep ringing bells as ISTR we briefly had a similar set of circumstances some years ago (so probably affecting VirtualRPC-SE, although that may not be relevant). It did however affect VirtualRPC/RISC OS and not the underlying Windows XP, SP2.
Like you, we tried different keyboards and mice, without clearing the problems. This affected only one machine of four, the others running identical versions of Windows XP, VirtualRPC-SE, RISC OS v4.02 etc, so we concluded it might be a hardware issue with that particular host PC.
The working fix was simple: Plug both the (existing) keyboard and mouse into separate 'primary' USB sockets on the computer - no more problems. By 'primary', I mean avoid 'secondary' USB sockets such as those combined with a card reader, on a plug-in multi-way USB adaptor, or 'daisy-chained' e.g. on the back of the keyboard. Also I suggest try it without the KVM switch in the loop.
This may have been a timing issue, or that some of the 'secondary' sockets were USB1 and not USB2. I dunno, but a fix is a fix - especially if it's permanent.
HTH Mike Nicholl pp T.O.M.S.
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