The cue sheets, according to several individuals involved in working on the boxed set, are Paramount's internal property and not able to be released.
I wonder if one of the main reasons for this is, Paramount feels they cannot release the cue sheets because they are documentary evidence of them violating the terms of the agreement with the musicians union. The business with the "Force Field" cue in Lights of Zetar is one example; and that's got to be the tip of the iceberg. If Paramount perceives legal issues, they will bury these things.
On the other hand – the mere existence of these recordings is itself a violation of that agreement. Tapes were supposed to be destroyed after each season. And I haven't heard anything about the musicians union being up in arms over this release. Would there really be more of an issue over documents?