Obi-Wan did not know who Tyranus was at that point and neither did the Jedi Order.
In season 6, episode 10, of the Clone Wars, Obi-Wan finds out that Tyranus is Count Dooku.
He informs the Jedi Council of this and Yoda commands the council to keep this a secret. Yoda says that the Republic has no choice but to trust the Clones and that revealing this secret could create a huge public outcry against the war.
Below is a transcript of the relevant portions of the episode.
Kenobi finds out that Count Dooku is Darth Tyranus:
Minister Lom (to Count Dooku): "You have no business left with the Pykes, Tyranus."
Kenobi: "Tyranus? You are the man called Tyranus?"
Dooku: "I told you everything you needed to know on Geonosis all those years ago, Kenobi."
...
At the end of the episode, Yoda discusses this revelation with the Jedi Council:
Yoda: "Know now we do, that guide the creation of the clones from the beginning, Dooku did."
Mace Windu: "Hmm, our enemy created an army for us."
Ki Adi Mundi: "If this was known, public confidence in the war effort, the Jedi, and the Republic would vanish. There would be mass chaos."
Yoda: "Cover up this discovery we must. No one, not even the Chancellor, may know. Valiant men the clones have proven to be. Saved my life, and yours they have many times. Believe in them, we must. Win this war swiftly we must, before our enemy's designs reach completion, whatever they may be."
Mace Windu: "Are you sure we are taking the right path?"
Yoda: "Hmm, the right path... no. The only path, yes. Designed by the Dark Lord of the Sith, this web is. For now, play his game, we must.*
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