There are about 4 different kinds of canon...
1) OTU canon - this is generally "most recent edition" - except that MGT is NOT canon for the OTU, except for those products marked as for the Third Imperium. GT is canon for events prior to 1115, last I heard, but nothing from then on is.
2) Rules Canon for edition - each edition has a separate rules canon. The errata Don accumulates is the most current for each edition.
3) Technology Canon - Traveller is, at its most fundamental level, about technologies. The Jump Drive and the Maneuver Drive canon is "most Current FFE edition", and supersedes all prior as to what can and cannot be done with a specific drive in the context of the Traveller universe. This relates to OTU canon... but isn't quite the same. Many people's games use the technology but back port it to other editions and/or their own ATUs.
4) Canon for a specific ATU - there are several ATUs, and what is canon for them varies by their authors.
Note that Marc considers the "apochyrpha" materials to be informative, but not of need canonical; much of it was adopted as canon in part, and later published in canonical materials.
In general, newest edition trumps. T5.09 is the most current edition for the tech base, and explains a few things in new ways that illuminate other editions rules - all the way back to CT, in a few cases.