I think the thing is, every intelligence agency has to have secrets for obvious reasons, that's where the rumours of dishonesty begin because it's not possible to open them to public scrutiny yet maintain their effectiveness.
I don't think government authorised experiments like the LSD trials were ever morally justified and I'd say that was a big violation of public trust. Things like that shouldn't have been pursued, but of course rules and regulations were less stringent then.
However, I think most of the secrecy has to be in place in order to allow these organisations to do what they are "meant" to do (keep a country safe and so on).
I share your distaste for the entry to the "War on Terror". I remember reading that Tony Blair had been shown to have made significant profits since it started on contracts related to oil companies, weapon manufacturers and the like. It's disgusting really.
I can't speak for Bush, but Blair was quite an immoral scumbag, always looking for a quick buck and more power for himself, whether that came in the form of a foreign invasion or happily shaking hands with evil despots like Colonel Gaddafi. It shames my nation
Frankly I wonder what the point is when the British at least are fighting in a way that will never bring victory. I don't know about the USMC, but the Brits have this "softly softly" approach that seems to just leave them sitting around waiting to get killed. What's the point of being at "war" if you're not allowed to attack the people you're fighting?