Well he did acted as if she was his girl very clearly during Isolation Permutation. He got very worried for her, his "be glad you can't keep a woman Leonard, they are a handful" and how he felt responsible for her to pick her up at the licorstore parking lot.
So I do believe that even if they weren't official he already did consider her as "his" girlfriend, subconciously at least.. and Amy going out with Stuart was the catalyst for him to make it official.
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