Flower said he saw no reason why Pietersen's short-term contract would not be extended to 12 months.
"I hadn't actually thought much about the extension of his contract," he said. "We're here focusing on playing well in India; I don't envisage a problem.
"We've had some great success and some great times together over the last few years.
"I think we can work very well together in the future and we've already started that process."
Flower said he was confident Pietersen would return to his best for England.
"It takes a little while to get back into your rhythm and top form, but he's an amazing cricketer," he said.
"I'm looking forward to him being involved. We had a long chat this morning, we've had a number of chats on the phone and of course he flew back to England just recently. I think we'll work well together."
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