Bold, intriguing idea. One milder spin on it could be that Obi-Wan sincerely thinks Anakin killed the younglings because he finds the bodies with lightsaber wounds (inflicted by Sidious himself), then finds the hologram of Sidious telling Anakin to “bring peace to the Empire” (maybe with the implication being the Jedi bugged the Chancellor’s office, further highlighting how morally-compromised the Order has become), and draws an understandable but erroneous conclusion with disastrous consequences.
That’s a possibility, though it may become too confusing. The cleanest idea would probably be to just cut Yoda’s line about the lightsaber wounds.
Rewatching the scene of Obi-wan confronting Padme, the camera really focuses on Obi-wan as he speaks about the Younglings. It’s interesting how he turns away from Padme and partially covers his mouth, presumably because the truth is too horrible to say outright but it also feels a lot like the character’s half-truth in ANH about Anakin’s death. That Obi-wan is even now willing to twist the truth to persuade leads right into the OT.