You could always write such a command. An excellent candidate for a small XP project...

This is a side effect of the Delayed Drawn Symbols system. Symbols are redrawn at the end of the pass. However, the countertops, being polygons are not.

Two ways to fix this is to either set DELAYDRAWSYM to 0 to stop this behavior, or do as Jim suggest and use a dedicated sheet for the counters.

Another method is to just hold down Ctrl and click on something to deselect it.

Most of the commands come from those dll's, so if those didn't load properly, it's not too suprising that the commands don't work. It seems like there is some serious issue with your install.

Things you can try is to install the newest Visual C++ runtime. Get it from Microsoft here: https://docs.microsoft.com/en-us/cpp/windows/latest-supported-vc-redist?view=msvc-170 (Make sure to get the x86 version, even if you have a 64-bit OS)

You can also try uninstalling and reinstalling CC3+.

But if this persist, the best course of action is to contact support. You'll find the support form on your registered user page.

That's the result you get if you export it using the "Cosmographer Template" option (It is basically formatted for the Traveller System).

If you just use File -> Save Campaign Cartographer File, you should get a more "normal" result.