A pulsed dye laser was used to implant Coumarin 6 (C6) and tetraphenyl-porphine zinc functional organic molecules (ZnTPP) into poly (butyl methacrylate) (PBMA) polymer films. The resulting films were patterned with a matrix of well-formed dots several micrometers in diameter. The dependence of the size of implanted dots on the laser intensity has been studied at different concentrations of the dopants in the source films. The mass distribution of each particular dot on PBMA target film was inferred using the fluorescence intensity distribution of the implanted dots. The dependence of the lower and upper limits of the dot's size was determined when source films having different dopant concentrations were used. Based on the results obtained the optimum parameters for creation of extended "two colour" complex patterns consisting of both, C6 and ZnTPP, molecular dots were established. (C) 2004 Elsevier B.V. All rights reserved.