On March 13, 2010, Japan Railways implemented revised train schedules. Note that there are now fewer train runs on the JR Tokaido and Kosei Lines in Shiga and Kyoto. JR has eliminated train runs which saw low ridership. If you use these two lines, you should refer to the revised train schedules and trash the old one.
On the Tokaido Line, the last train from Kyoto Station to Yasu Station now leaves at 12:34 am instead of 12:58 am. In the mornings and evenings of Sundays and national holidays, there is one less train run going from Yasu to Maibara and from Maibara to Yasu. (So four fewer train runs on Sundays and holidays.)
As for the Kosei Line between Kyoto and Katata Stations, the four train runs per hour between 10 am and 2 pm on weekdays will be reduced to only three train runs per hour in both directions. Between Kyoto and Omi-Maiko Stations, there will be one less train run in both directions in the evenings during both weekdays, Sundays, and holidays.
The Kusatsu Line and Hokuriku Line are not affected by cuts in train runs (although the train schedule may be different from before).