Hi, rascalflatts, and welcome to Psych Central! I know such switches in meds can make us anxious, but keep remembering that both the doc and the pharmacist said what you are doing is okay. And you will be all right.
As far as intrusive thoughts, you might ask in the forum for folks who really deal with such issues regularly. Here's the link:
http://forums.psychcentral.com/anxiety-panic-phobias/.
I hope you can relax soon and benefit from the change.