In the summer of 2012 I went to the Bohemian Forest (Šumava): by train to the ultimate stop (Rybník), via Rožmberk and around the Lipno lake, mostly following the cycling track 33. And then further on following the German borders, via the Upper Palatine Forest area (Český les). It provided an interesting comparison of Šumava, which is getting quite commercialised, especially around Kvilda or Modrava, with the Český les, where the time has stood still since the Cold War era Border Troops have left, and one can be distrubed here by nothing but maybe a a herd of cows (with the exception of the Čerchov lookout tower, a turist target). I can recommend this route to anyone looking for a quiet hideout in the nature.
My first bikepacking trip started from the Austrian Innsbruck and followed the Alpine valley of Inn. Then, when the Alps were gone all of the sudden and immediatelly replaced by the flat lowland, I continued around the lakes of Simssee and Chiemsee, via Burghausen with its monumental castle, or Braunau, the birthplace of one famous guy the locals would rather want to forget, all the way to the point where Inn dissolves into Donau in Passau.