Meh, this is nitpicking in my opinion.
True, what you're describing @Sab1e doesn't look very good for a finished product... Then again, this is not a finished product
For the moment, the base can be mostly located on flat terrain so that those small problems are hidden under the carpet.
What's important now is to get all the prerequesites for a correct / smooth playing done, then get on the gameplay. The polishing will be done later.