After giving Update 3 a more detailed readthrough, I find that some of the sections had their games rules... well.. missing? Is this a design choice or is this unintentional?

This include the following:

Actions Chapter, Space Politics Section: Rules regarding Anti-nuke are now missing,  the one about restricting nuclear components from being boosted. I can still find the remainder in the Operations section, which makes sense, since Hostile Recruit and Income operations are not in crewed rules.

Upgrades Chapter, Species Capabilities Section: This section is missing, and I can't find any mention of it in ABDL, does crew no longer gain Species Cap when their Physical rating is conditioned?

Ecounters Chapter, Intent Cards Section: TSI-Update2 had included a table used for rolling out Crew/Colonist careers, some of the jobs included are here, no tables though. Are they meant to be included in this section, or are they supposed to have their own section?

There has been some simplification that I missed from the release notes. Species capabilities are out (for the moment) - I’m not sure if I’ll put them back in. Expanding parts felt like the right way to go here. The careers tables also didn’t feel quite right  and replacing them with encounter cards made more sense; as I’ve not done promoted encounter cards yet, some of the later era careers may appear back in that format.

Anti-nuke rules should have been included in the boost operation section and that appears to be an oversight. I’ll include it back in in the next update.

Alright! Thanks for the clarification, will look forward to the encounter changes!

For anyone else reading this thread, the rule is 

"If the space politics is Anti-nuke, you cannot use the boost operation on reactors or components which have an on-board reactor and your starting spacecraft will not have these components."