Person C was charged with crimes A and B.
Person C pled guilty to crime A, as part of a plea bargain with prosecution, in exchange for dropping charges on crime B.
Executive branch (state or federal, as appropriate) pardoned/commuted the sentence of person C for crime A.
Can prosecution decide to prosecute person C for crime B now, without it being thrown out as Double Jeopardy?
Why it's unclear to me: Wikipedia says
Double jeopardy is a procedural defence that prevents an accused person from being tried again on the same (or similar) charges and on the same facts, following a valid acquittal or conviction, which seems to exclude the situation where the charge was pleaded out of - which is neither acquittal nor a conviction.