Political tension and on-field friction have stalked the teams at the regional tournament following a deadly military conflict between the nuclear-armed neighbours in May.
India angered Pakistan by not shaking hands in either of the first two meetings between the teams in the UAE. Unbeaten India won comfortably in the group stage and did so again in the Super Four round.
The tension increased when players exchanged words during last Sunday's clash, with India filing an official complaint over gestures made by Pakistan duo Haris Rauf and Sahibzada Farhan.
Agha said the lack of handshakes had left him perplexed.
:"I have been playing competitive cricket since 2007 and have never seen a game go without a handshake," Agha said on Saturday, speaking for the first time on the controversy.
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