Well we all know what it's like to have intrusive thoughts because usually it comes with the territory of having OCD. They're not pleasurable, but remember. A thought can never hurt you. A thought cannot make you act. These thoughts are symboclic and not literal, meaning that it's your sub-concious' way of slapping you around to get you to notice that something else is bothering you that needs your attention. When you get to the root of what's bothering you in therapy, you'll notice your symptoms will start to ease up because your mind has finally figured out what was bothering it to make all of these symptoms come out.
Medications are only as good as the therapist that you see to talk about your progress. You wouldn't buy a $2000.00 stereo and then not bother to read the instructions that comes along with it would you? Your therapist will be able to work with your regular physcian to help you find a medication that works for you.
Keep in mind that medications are not a cure all for OCD, but they can help reduce some of the anxiety and some of the symptoms. The most effective therapy today for OCD is medication in conjunction with therapy. Hope this helps!