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Luckily, the Seel conundrum solved itself rather quickly. Seel definitely sucks.
Sadly, Jumpluff's fate was exactly as I feared. Karen is a bitch. Lance's gimmick of spamming Hyper Beam is lame too but it is a somewhat respectable strategy. Karen's team, on the other hand, seems to be built exclusively to screw you over in the most infuriating of ways. At least the Champion fight went a lot better this time around with only one death.
Time to train the B team until they are underleveled enough to handle Kanto!