Theme trouble

I've written my own theme which I use on a kwiki. Not sure whether this 
stuff happened with 0.36 or earlier, but every time I update the kwiki 
with "kwiki -update", it seems the kwiki adds a "Deny from all" 
.htaccess file in the ./theme directory. The result of this is that my 
theme css file (located in ./theme/themename/css/kwiki.css) is 
unreadable. I've tried removing it, but everytime the kwiki is updated, 
it gets put back in. As far as I can see my theme css file does not get 
copied anywhere else either, so I guess this looks like a bug.

Am I the only one have theme problems?

Thanks,

Marius Kjeldahl