I get the feeling Trisha (Teri) dies off-screen, in between episodes, beyond midnight. Maybe she supposedly survived, which is why the clock wasn't silent, but those were some really severe seizures/concussions she had. Also likely that, to add some difference or variety, the ATU may actually shift the children to a different place.
I'm not sure they're even following the events of the original series entirely. The second season is apparently set in Dubai, so we may have a very different story from Season 2.
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