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Another change I made was to discard bus stops from the map that do not have any service between 7am and 9am. These are likely late-night bus stops that don't normally receive service during the day, so it was misleading to include them in the final map of rush hour transit times.
And finally, I no longer simply calculate the best way to get to downtown by 9. I also calculate the best way to get to downtown by 8:55, and I then average the two results. This helps ensure that the data isn't skewed because the schedule shows a perfect transfer of buses (e.g. a bus that only runs every 30 minutes, but just happens to arrive just before another rare bus so that you can get to downtown without waiting--even though in practice, if the timing is just a little bit off, things don't line up and you end up 30 minutes late). By averaging the results for different times, it reduces the magnitude of this effect.
In the end though, the final map visualization looks pretty much the same as the previous one I generated except for the extra GO Transit routes.