Wondering if the virus Johnny implants in Arasaka tower in 2023 was from Crimson Harvest. Spider Murphy says its a foreign daemon, and Johnny does go on about famers being fucked over by corps a good bit during his rant after dropping off Helman to Takemura.
Mass casualty bombings against a corp with disregard for innocent people within it is the Crimson Harvest's MO. It may also lend credence to the idea and comment Johnny made about not knowing that the bomb was going to be as bad as it was.
Spoilers for Phantom Liberty, Mr. Hands side gig:
Nele in the Roads to Redemption quest was a Crimson Harvest member and mutinies them after a mass casualty bombing she was instructed to do without being told how bad the aftermath would be. There is a ton of parallels between her and Johnny. Now Johnny is being a massive shithead throughout that quest about "doing what you need to do for the greater good" or whatever, but that is kind of a departure from now he reacts when confronted by Saburo when he's about to be copied into Mikoshi. He is regretful when the woman who is copying his engram says her husband died in the explosion. That that wasn't supposed to happen.
Then again, I think the 2077 source book or some other 2077 related lore book says that none of that even happened, and Johnny basically got sawed in half by Smasher's machine gun and it was Murphy who copied his engram. So, idk, its hard to get any truth in this game whatsoever. Everything is up for debate.