Paul and you are forgetting about the Kingston hub. We'll still be running the equivalent of a half to full dozen trains the length of the Lakeshore corridor. Only now they start in Kingston.
I don't think the 'hub' concept necessarily means that the number of trains will be maintained or increase. It may simply be a redesign of schedules to optimise for the local segments (e.g. Toronto-Kingston, Kingston-Ottawa) rather than the end-to-end routes (e.g. Toronto-Ottawa).
I think
@crs1026 's suggestion of a layover yard in Kingston is spot-on, since it would enable some early morning commuter services to depart from Kingston towards Toronto, Ottawa and Montreal. In the January 2018 schedule below (the most recent schedule I happen to have a spreadsheet of) the first train from Kingston to Ottawa didn't arrive there until 11:29, which is rather late.
With so many of the current trains running skip-stop patterns, there are a lot of missed connections along the line. For example, there's only one train per day which you can use to travel from Brockville to Cornwall (#64), despite there being 6 trains along that segment.
I colour-coded the services by approximate service type:
red = superexpress
yellow = intercity/regional
green = commuter
Here's an idea of how a more locally-oriented schedule could look:
In this concept, the number of trains is significantly reduced, but the utility of the service for local communities is still comparable. There may be fewer trains, but the trains that remain are at more useful times.
I removed most of the express services, but I kept two express runs per day between Toronto and Montreal, which would supplement the hourly service via Ottawa during the busier times of day.
I also added a couple shuttle trips between Ottawa and Kingston rather than continuing them the whole way to Toronto, since I figure that the HFR route will capture the entire demand between Toronto and Ottawa themselves. Most of these shuttle trips have a timed connection in Kingston to a train running between Toronto and Montreal.