God created the ability to think. Our thoughts are our own.
You mean that there exists a (divinely created) mechanism by which atoms and molecules and energy can
think?
How does it work? Can you provide a detailed explanation? Or are you just content to say "It does. God did it. That is enough for me."
Well, if that is your position... fine.
But what is the difference between
"Thought is incredible complex, practically impossible... were it not for that (unspecified) divine process that makes it possible"
and
"Evolution is incredible complex, practically impossible... were it not for that (unspecified) divine process that makes it possible"?
Why is "irreducible complexity" your stumbling block in one case, but not in the other?
If thoughts are just a product of evolution then we should be able to cause (or prevent) certain thoughts to occur by adding (or removing) "certain stimuli" to (or from) the brain.
Err... you can. In practice, not precisely, because a system as complex as the human brain and consciousness is rather difficult to influence in precise ways... but generally. Drugs were already mentioned. Advertising (and the psychology behind it) is another example.
How does science account for the fact that I can deliberately think of something I've never thought of before without building up to it over millions of years (and without my head exploding). Note: I haven't yet thought about something that I have never thought of before, but I'm thinking about doing it. Explain that.
I'm not completely sure what you are aiming at with this... but I am quite certain that you
cannot think of something that is completely unrelated to anything you have already thought before.
While you're at it explain why I and millions of others don't believe in the ToE even though it's been around for 150 years. If we have indeed 'evolved' shouldn't we readily accept the idea?
The human brain didn't evolve to "readily accept" certain ideas. The human brain evolved to think in a certain way. This way isn't required to always be perfect and correct. In fact, it works even better for being wrong once in a while.