I'm a contractor with NOAA (really).
The answer is:
It depends (again, really).
In the real world nothing EVER matches theoretical models.
Especially if you are talking about water quality in the Boston area.
Little known fact:
During Boston Harbor dredging there was a problem with disposing of Tailings.
Turns out with all the crap that had been dumped there over the years it qualified as toxic waste.
This was back in the 80's and early 90's.
You never saw much in the way of animal life and what life there was wasn't very healthy and didn't stick around long.
These days there are abundant populations of seals (mostly Grey and Harbor seals) and regular visitations by dolphins, porpoises, and other, rarer critters. The fish populations are slowly rebuilding (in the harbor itself, anyway. The oceans outside it are another story.....) to the point where recreational fishing is a thing again. I've even seen people putting out Lobster Pots in the harbor with some success (they are absolutely NOT supposed to be doing this because they are really unsafe to eat). The Saugus River ( where I grew up) was nearly devoid of year round life when I moved away in the early 90's. It now has a nice recreational fishery and parks with river access where there were abandoned lots. Even Buzzards Bay ( a Super Fund Site for Attoms' sake!) is starting to see life come back.
The one thing Jurassic Park got right was "Life Finds A Way".
So, when would the Water be safe to drink?
It wouldn't be considered safe to drink NOW, at least where the game is set.
But, 200 years from now, really, there is no good way to tell how life will have adapted to changes.
If you REALLY want a WTF moment read this article:
http://www.whoi.edu/news-release/killifish
It essentially outlines how Killifish in Buzzards Bay (a small, minnow-like fish) have actually evolved to be nearly immune to certain types of toxic waste common in the Bay. In just 40 years.