The six are suspected of belonging to the banned radical religious groupings Hizb ut-Tahrir and Islamic Movement of Uzbekistan.
Kyrgyz authorities say they are looking for another nine people suspected of involvement in the unrest.
The armed attacks, which took place in Kyrgyzstan's Batken Region, claimed the lives of several Kyrgyz and Tajik soldiers.
Arms and leaflets allegedly confiscated from Hizb ut-Tahrir members in Kyrgyzstan in May (RFE/RL)
ATTRACTIVE TO THE YOUNG: It is virtually impossible to estimate the size or composition of Hizb ut-Tahrir's membership in Central Asia, because the controversial movement is banned in most places. But some observers say anecdotal evidence suggests the group's core of younger members is growing....(more)