Plans by Indonesia to ban exports of some raw minerals from 2014 and impose a 25 percent export tax on coal and base metals this year will stifle foreign direct investment, hurting growth prospects in Southeast Asia's largest economy.

A money changer counts Rupiah banknotes October 17, 2002 in Jakarta, Indonesia. The rupiah is at a six month low, 9,200 against the U.S. dollar, following concerns over the bomb blast on the tourist island of Bali.

"FDI has become an important component" of Indonesia's balance of payments over the last few of years, Prakriti Sofat, Regional Economist at Barclays Capital told CNBC on Thursday.