India A were 308-4 at stumps on day three of the first four-day match in Bloemfontein, still 201 runs behind South Africa A.
Abhimanyu Easwaran top-scored for the visitors with 103 after captain Priyank Panchal had made 96.
Lutho Sipamla (2-73) and George Linde (2-32) were SA A’s most successful bowlers.
Linde trapped Panchal lbw to end a 142-second-wicket partnership and then had Hanuma Vihari caught behind by Sinethemba Qeshile for 25.
George Linde picked up the second wicket for SA 'A' shortly after lunch on day 3.
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Easwaran was caught by Sarel Erwee off the bowling of Sipamla with the total on 294.
Baba Aparajith (19*) and Upendra Yadav (5*) were still at the crease when bad light stopped play.