Definitely in the morning. I would actually probably even give it more than once a day. Not sure what brand you have and how many billions are in each pill (is it made for kids or an adult one? ). Look at those - give a full dose in the morning. Then maybe divide a dose for lunch then again a few hours before the abx if the billions are pretty high. Or you could just divide one dose over the course of the day if it's a high dose. I've done both in different circumstances, but I've been giving probiotics to my son for a while now, so I know how much I can up his dose or spread it out now when needed.
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Some other mama's on here know more about which type of probiotic is better for countering abx...hopefully they can help a little.
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I know at that age I was still giving my son one with a large amount of bifidobacteria in it.
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Definitely avoid anything sugary while doing the course (although at 9 months not sure if you're doing cookies or anything yet anyway?)
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Keep up the probiotics after the abx are done for a couple of weeks too.