I'm just tossing around this idea... take it as you want it...
In the level "High Charity" we get to the last part where you are fighting (or not fighting) your way to get onto the energy lift for the Old Forerunner Ship. Since there are Flood and Covenant forms already at that part of the level, and we know that they are capable of being an organized form, the Flood could possibly be on the Old Forerunner Ship and are heading to Earth along with Truth and the M.C....
What a prediciment that could cause, 'eh?
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