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One of the new stratagems for assassins is "Priority Threat Neutralized" which allows assassins to generate CP. I understand the first part where you can get 1 CP for killing a character figuring that's the one CP per turn that your can earn per turn but if you kill the warlord you can get 2CP? Doesn't that break the 1CP per turn rule? And if that stands apart from the add 1CP per turn does that mean I can still use IG's Grand Strategist to get my 1CP back a turn?

I suggest you read the tactical restraint rule, especially the very last sentence.

In general, only 1 CP generating ability, even if your army has more than 1, can be used per turn (or is it round?). If the said ability allows multiple procs per use, it only procs once. There's generally no "cap" on how many CP's the said ability can generate, as long as it is the only CP generating ability that is being used.

Last sentence of Tactical Restraint says:

Also note that this does not apply to Command Points that are gained or refunded as specifically instructed on Stratagems

It makes it clear it only applies to CP regen from warlord traits or relics, CP gained through stratagem use is not effected.

Like everyone said, the Tactical Restraint rule is explicit in this regard.