I do know that who else but JEB Stuart had his own version to the song where he invites fighting Joe to come out of the Wilderness. So I believe each side had it's own versions.
His men parodied Hooker in the popular war song Marching Along. The lines
McClellan's our leader,
He's gallant and strong
were replaced by
Joe Hooker's our leader,
He takes his whiskey strong.[18]
Historian Stephen W. Sears, however, states that there is no basis to the claims that Hooker was either a heavy drinker, or that he was ever intoxicated on the battlefield.[19
I don't know if this is what you are looking for, but it was the only thing I could find.
Still haven't found the lyrics, though it seems to have been a parody of "Old Abe Lincoln Came Out of the Wilderness", itself a parody of "Ain't I glad I got out the wilderness" (aka "Down in Alabam'"). It was also called General Hooker's Quickstep.
Old Joe Hooker, won't you come out the Wilderness
Come out the Wilderness
Come out the Wilderness
Old Joe Hooker, won't you come out the Wilderness
Come out the Wilderness now
There were a lot of things going on with that little song, which Jeb Stuart just sang off the cuff as it were, to encourage the men at a dispirited time. The tune was one familiar to all of them: Old Dan Tucker. Here it is by the 2nd SC String Band:
The Wilderness was a reference to both the location of the fighting and an old timey black spiritual: Come Out the Wilderness. Here it is:
I saw a reference somewhere to U.S. troops early in the Chancellorsville campaign singing:
"Old Joe Hooker went into the wilderness
into the wilderness
into the wilderness
Old Joe Hooker went into the wilderness..."
but that's all I know so far. I guess I did ask about C.S. versions, though.
Joseph Hooker (left) and Robert E. Lee (do you really need him pointed out?). Both photos are attributed to Mathew Brady, although the Hooker photo may be by Levin C. Handy.