Alright. Let's take a look.
Putting the Nubian portal just south of the NEC is a pretty elegant solution. You need to do some significant climbing and diving to go from street level to sub-Mass Pike to Tremont Street Bellmouth, but it should be doable.
If you want to future-proof for a subway under Marginal, you need to do some provisioning.
To review my "Level" nomenclature/shorthand: Level 0 is street-level, Level 1 is one "story" sub-surface (bottom of tunnel is 17-20 feet below pavement of street) and is the level that the Mass Pike runs at; Level 2 is another level below that, a.k.a. the depth of the Orange Line just under the Pike; Level 3 is one more, i.e. the depth of a tunnel that goes underneath the Orange Line underneath the Mass Pike.
Diagram below, but the highlights are:
- Build your Bay Village Park-Nubian platforms under Tremont Street at Level 2.5 on the western half of the street
- to reach this depth from the bellmouth should require about 400 feet of running track, which just about fits;
- the southern end of your platform should leave enough running space for the track to descend 0.5 Levels before hitting Marginal Street -- should be about 130 feet, which just barely fits;
- by now you are at Level 3 and clear to go under both the Pike and the Orange Line
- It will be tempting to start journeying under the Pike at a shallower depth, i.e. Level 2, and desend under the Pike to reach Level 3. In my opinion, the better option is to reach Level 3 under Marginal Street -- see below
- [EDIT to add: you will also want to "swing wide" when tunneling under the Pike -- should be pretty much aligned with a western platform, but you will need the full 130 feet (if not a little extra) in order to descend to Level 3 before Marginal]
- When it comes time to expand Bay Village station to include Marginal Street services to Back Bay and the Seaport, double-stack your platforms at Levels 1.5 and 2.5 on the eastern half
- I think you are better off putting Park-bound service on the lower level
- (This also means that all Park-bound service can leave from the same platform on two tracks)
- Strictly speaking, you don't have to superimpose your platforms on top of each other; they could be off-set -- the main purpose to the grade separation is to provide vertical distribution for a 3-way flying junction south of the station -- the horizontal distribution is less critical
- Whichever leg you build first -- to Back Bay or to Seaport -- make sure to leave enough space for a complementary flying junction on the opposite side
- You will need about 260 feet of running track between your eastern junction and your western junction, as the eastbound and westbound tracks will both need to switch to the opposite level they enter the junction from
- Both your Level 1.5 track and your Level 2.5 track will rise as they exit Bay Village to hit Level 1 and Level 2 respectively; this is how you will fit your Nubian tunnel underneath an east-west Back Bay-Seaport subway under Marginal, and is why your Nubian tunnel needs to descend to Level 3 before hitting Marginal
- To rise that 0.5 Levels, your tracks will need 130 feet of running space; that is easy to get on the Back Bay leg, but will require a tight turn on the Seaport leg
- Finally, when building your subway to the Seaport, I suggest provisioning a gap northeast of the Harrison/Hudson intersection (currently a parking lot); this future-proofs a Nubian-Seaport leg, either descending from a surface portal, or ascending from a subsubway that has come up under the Pike
Here is a crude diagram of what I'm describing with full build at Bay Village:
View attachment 22844
Like I said, you don't have to put the Back Bay/Seaport track directly above the others -- you could off-set it to the western side. (That decision will be partially impacted by the concourse design for the new station, which I didn't really game out the full details of.)
And here is the diagram. Hopefully self-explanatory. Darkness of the coloring corresponds to tunnel depth -- Level 1, Level 2 and so on. The effort at depicting the superimposition of the platforms is not great, but hopefully clear enough.
View attachment 22848
And zoomed in. The exact measurements of the grades -- especially in the junction -- are not precise, and so the alignments may need adjusting. But there should be space for everything to fit.
View attachment 22850
Under the theory that the Nubian Branch will get built first, practically speaking this really boils down to one thing: plunk your Park-Nubian platform at Level 2.5, and if possible, dig to Level 3 before hitting Marginal.
That being said... as you can see, the envelope of the station is such that a Nubian-Park platform built at Level 1.5 could then subsequently become a lobby in a future expanded station. You could even probably carry out the work underneath while keeping the station open above, and with good staging could reduce the need for service closures. Once the lower level of the station is built you would need to lower the tunnels to the north and south, which would disrupt service but possibly could be done without excavating the entire street a second time.
And in the (highly unlikely) scenario where either a Back Bay or Seaport Branch gets built first, stacking the platforms still gives you the most flexibility for adding the second leg later on, and potentially can reduce the on-street impact of construction, due to the narrower profile.