This sounds an awful lot like a problem I had with a VNC server a long
time ago, on Windows.  After a lot of frustration it turned out to be a
configuration issue.  The VNC server was polling too zealously -
constantly polling the entire desktop, instead of a more effecient
strategy like polling the area under the cursor and a small surrounding
area, and polling the rest of the desktop only periodically.  All this
polling was a real drag on CPU resources, and a pretty easy
configuration change fixed it.  I haven't used VNC in a long time, so I
don't have any more specific advice off the top of my head, but
hopefully this info will be useful.

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VNC much slower with kubuntu client than with vncserver
https://launchpad.net/bugs/67165

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