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Bio2 has 30 seconds of uptime per cast, with an additional 30 seconds from 2 contagions, so we need to cast it 5 times. Without contagion, 6 times.
Miasma has 24 seconds of uptime, with 30 seconds from 2 contagions, so we cast it 6.25, or 7 times. Without contagion, 7.5 times, or 8 times.
Bio has 18 seconds of uptime, so we cast it 8.3 or 9 times. Without contagion, 10 times.
Thunder also has 18 seconds, so we cast it 9 times. Without contagion, 10 times.
Sflare has 30 second uptime, so we cast it 6 times. No Change
Miasma 2 we cast twice, during contagion. We no longer use Miasma II, instead Ruin II twice, which amounts to a loss of 40 potency over 3 min.
So w/o contagion we only lose 4 GCDs in the way I rounded up before. Without rounding, it comes out to 1+1.25+~3.33, or 5.5 GCDs.