Please, for the love of god, stop with the custom scroll bars, and on the wrong side of the viewport, no less!
The left-hand scrollbar controls and reports on the left-hand viewport. The right-hand scrollbar the right-hand viewport.
More conventional organisation (and less confusing, possibly) would be to retain the scrollbars to the right of the corresponding viewport.
Note that left-handed scrollbars are occasionally used elsewhere, as in the X11 Athena Widgets (Xaw) set: