Maybe if the MTA stopped looking at each of its divisions as seperate entities fighting for $ and combined projects/needs where feasable, then it wouldn't be maxed out. Now I am not saying that LIRR & MNRR have to be one organization, but they have similar goals and could have similar equipment.
For example, the MTA should have forced LIRR & MN to share a diesel design. Even it this lead to DE30s for both, there would have been more of them so costs and problems would have been shared and maybe driven costs down and a solution found.
Another example is ESA - only benefits LIRR. MNRR would like access to Penn Station, so why not shared tunnel or tunnels (1 level/tunnel LIRR, 1 level/tunnel MNRR) under Park Ave with station stop at Grand Central then continuing south until under E.River access tunnels where it would turn west to a new 16-20 track shared MTA level at Penn Station. This would would increase the overall capacity at Penn Station (the real problem), give ESA for LIRR, give WSA for MNRR and interest NJT $ to project, with use of vacated LIRR upper level tracks.
But in all cases with MTA, why should they care - its rider & tax payer $ they are using with no consequences.
Now I bring the above up after reading a post in MTA NYC Subway forum (railroad.net/forums/viewtopic.php?t=42212) where NJT had an idea to use AK bridge & N.Shore SIRR ROW for access to SI Ferry in attempt to relieve congestion on its systems. While this seems a silly idea now, if the Cross Harbor Tunnel connected SI subway to Brooklyn subway, that idea might not seem so bad and add a possible $ source to at least share cost of restoring N.Shore ROW and some to actual tunnel (of course diesels would have to be use to avoid clearance issue with freight). A really extreme idea would be to let NJT continue on Bayridge branch to LIC ferries. Furthing this very extreme idea would then include a shared tunnel between for Midtown Tunnel (3rd tube), LIRR & NJT (dual mode diesels for both) from LIC to Manhattan/Penn Station (old & new level).
Of couse none of this, including the cross harbor tunnel, will happen in my life time, if ever!