From "Elaan of Troyius":
KIRK: Chekov, arm photon torpedoes.
CHEKOV: Photon torpedoes ready. ...
KIRK: ... As he passes, I want to cut in warp drive. We'll pivot at warp two and bring all tubes to bear. ...
KIRK: Mister Chekov, give him a full spread of photon torpedoes.
It doesn't say whether a "full spread" consists of 4, 6 or 8 torpedoes, but "all tubes" suggests indeed at least two torpedo launch tubes and - given the context - discards the possibility of an aft launch tube as this would be included in "all tubes".
If the "Journey to Babel" writer wanted to suggest launch tubes 2, 4 and 6 why didn't he write so?
Fire "torpedo tubes 2, 4 and 6" would not have been ambigous and everybody in the audience would have understood.
Instead, the dialogue only refers to numbered photon torpedoes and IMHO suggests that torpedoes 2, 4 and 6 had a yield that's different from torpedoes 1, 3 and 5 which is the reason why Kirk specifically wanted to have those fired.
Bob
I think the tube interpretation makes the most sense.
Actually, "all" tubes most likely means three or more; if there were only two tubes, then "both tubes" would have sufficed. You wouldn't say that you're going to shoot someone with "all barrels" of your double-barreled shotgun. No, the phrase that you'd use is "both barrels."
You can watch the Enterprise fire a full spread of six torpedoes at about 1:55 of this compilation of the remastered FX:
[yt]http://www.youtube.com/watch?v=NdKGl5Y141A[/yt]
Also, the writer of "Journey to Babel" is a she.