In order to explore the role of fluorine atoms on photostability as well as morphology control of active layer in the presence of 1,4‐butanedithiol (BT), the four polymers with or without fluorine atoms in the backbones including polythieno[3,4‐b]thiophene/benzodithiophene, poly[(4,8‐bis‐(2‐ethylhexyloxy)‐benzo(1,2‐b:4,5‐b9)dithiophene)‐2,6‐diyl‐alt‐(4‐(2‐ethylhexanoyl)‐thieno[3,4‐b]thiophene‐)‐2‐6‐diyl)], poly[4,8‐bis(5‐(2‐ethylhexyl)thiophen‐2‐yl)benzo[1,2‐b;4,5‐b′]dithiophene‐2,6‐diyl‐alt‐(4‐(2‐ethylhexyl)‐3‐fluorothieno[3,4‐b]thiophene‐)‐2‐carboxylate‐2‐6‐diyl)], and poly[4,8‐bis‐(2‐ethyl‐hexyl‐thiophene‐5‐yl)‐benzo[1,2‐b:4,5‐b0]dithiophene‐2,6‐diyl]‐alt‐[2‐(20‐ethyl‐hexanoyl)‐thieno [3,4‐b]thiophen‐4,6‐diyl] were selected for comparison. It is found that the specimens containing fluorine atoms in polymer backbones showed of higher stability after illumination for 1 h in the presence of BT additive, contributing to the higher domain purity. The specific interaction between fluorine atoms and thiol groups was demonstrated by the appearance of novel absorption peak at 2663.1 cm−1, in addition to the broadening of peak at 2556.2 cm−1 ascribing to SH stretching vibration as confirmed by Fourier transform infrared (FTIR) spectroscopy. The finding may guide the accurate use of thiols as effective solvent additive in morphology and stability optimization. © 2019 Wiley Periodicals, Inc. J. Polym. Sci., Part B: Polym. Phys. 2019, 57, 941–951