Yes, investments in NRE mode are subject to limitations fixed in pursuant to SEBI guidelines. This is basically to monitor Foreign Investment/NRI limits in listed companies. Hence, the stocks where such limits are already hit or close to be hit, are restricted for fresh investments in NRE account. The list of such stocks are released by the Exchange from time to time. 

Check here the list of such stocks.

You may however invest in any stock without any restriction in a NRO account.

Added to this, you will also not be able to make Intraday trades, Buy Today and Sell Tomorrow (BTST) and funding transactions as these are not allowed in NRE mode. These are however, open for NRO accounts