The Bio stores in Prague are usually your best bet for finding fresh gluten-free bread (versus packaged stuff like Schar, which is quite dry and tasteless compared to freshly baked breads), a wider variety of flours, and other goodies like unsweetened almond milk. I passed one in almost every neighborhood in Prague and almost all of them include ‘bio’ somewhere in the name so you should be able to google the nearest one to you.
There are also a few gluten-free bakeries or places that make their own fresh gluten-free bread. See a list of bio stores and gluten free bakeries here:
Bio Smíchov (they don’t have a website)
When I was last there they had fresh gluten-free bread for sale up at the front counter. I’d call them to make sure before going in or keep my expectations low since a lot of these types of shops only get deliveries certain days and once the bread is sold (usually within 1/2 day or a day) it’s gone until the next delivery.
Adress/District: 150 00, Viktora Huga 377/4, 150 00 Praha 5
Phone: +420 734 466 477
Roztylská 2321/19, Prague 4
+420 602 148 882
Nádražní 31/17, Prague 5
+420 257 326 628
Dejvická 277/26, Prague 6
+420 224 326 510
Bělehradská 287/71, Prague 2
+420 775 269 784
Melantrichova 463/15, Prague 1 (There are also two Country Life stores in Prague 6)
+420 224 213 366
Address: K Libuši 129/2 Praha 4
Phone: +420 607 940 655
*This places serves both regular and gluten-free hot & prepared foods but also sells fresh gluten-free breads and buns and has a clearly marked gf menu.