During 2003–2008 years first fundamental transport infrastructure projects financial supported by the EU funds were being implemented in Lithuania. The study of the problematic situation of the implementation of following projects was accomplished in 2008. The results of analysis show that proceeding of project preparation and implementation has some particular obstructions and delays. The results of analysis of projects’ implementation confirmed that exist few important factors influencing on final economic result of projects’ implementation. Unforeseen risk was correlative with the delay of competitive procedures or financing incongruity to the seasonal periods, and increased cost of construction works. The economic calculations of the great part of the projects which have been finished during 2006 year were accomplished in 2004–2005. Exactly during this period the prices of fuel and material have been changing. Seeking to implement projects of the EU support the Ministry of Transport and Communications additionally budgeted the significant share of the total finance for road sector