In a way, yes. Clemenza's throwing his weight around (no pun intended) in both scenes. In the GFII outtake, Clemenza's the boss, ordering Vito around, just as he had arranged the dress theft and the guns in the first place. What makes this scene significant is that, in another deleted scene after Vito kills Fanucci, after Sr. Roberto makes his hasty retreat from Vito's office, young Clemenza introduces young Roth to Vito. Clem is very respectful, doffing his derby and looking humble. In the GF deleted scene, Clem is exercising a certain droit de signeur, making his subordinates wait--because he can.

In a real-life parallel, Gay Talese, writing in "Honor Thy Father," points out that, while Joe Bonanno was grooming his son Bill for the Donship, he made him wait in a car for eight hours outside a building he went into, with no explanation before or after.