Owner not returning my full deposit

Hello Sir, I am residing in Pune now and was living in Mumbai Mira road in a rented house. Deposit was 50K. I have vacated my place after giving a one month notice on 30th September and asked owner to come and check for the damage(if any and if you think) but he didnt come and asked me to surrender the key to broker. The broker checked and says ok and I vacated the place. Owner given me the cheque of 40K saying he will transfer remaining amount 6k as 4k was electricity bill. I couldnt deposit the cheque and then when i deposited after 1 month ie. around 1st November , it was dishonoured as owner stopped the payment. He told me that he stopped becasue there are lot of damages we have done in his house. He has given me the expense of 15K which we have not done but we accepted ok please return the remaining amount. After lots of requests he returned 25K instead of 35K saying he is deducting 15 k as expende and 10k as a fine. Please help, what to do ..Its been 3 months since I vacated the place. The contract was of 11 months but we have vacated in six months due to some personal reasons but Questions: 1) Is there any time limit for a registered agreement after which I cannot file any case ? 2) Can I file a case in civil court from pune inspite of Mumbai or I have to file the case from Mumbai only and I have to go to Mumbai for filing it? 3)