The TTC has finally improved their e-alert system so that passengers can filter messages only for those routes that they use. Here's the press release with instructions on how to update the service (i.e. if you don't change your profile, the alerts will come as they do now). Also in the works is a newsletter that I suspect most will want to avoid subscribing to. See below:

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The Toronto Transit Commission today updated its e-alert service, allowing customers to select - or filter - specific subway lines or surface routes in their profile and receive system delay notices for those routes only.

For existing e-alert subscribers, the e-alert system will continue to send all e-alerts for all routes should customers opt to not edit their profile and include specific routes. New e-alert subscribers will be given the option of selecting specific routes only; otherwise the system will default and send all e-alerts generated by the TTC.

E-alerts are issued during rush hour periods if a delay or diversion is expected to last more than 15 minutes. E-alerts are issued after 30 minutes during non-rush hour periods, including weekends and holidays.

The e-alert system will be improved further in the coming weeks, including the ability to manage multiple email addresses, and the introduction of an e-newsletter that customers can subscribe to using the same profile adopted for e-alerts. The e-newsletter will have information about upcoming service changes, construction, events and festivals in Toronto, and TTC initiatives to make the transit experience a better one.