BBB with LCD3 cape: touchscreen calibration

I have working LCD3 cape connected to BBB (Debian, 3.8.13 kernel). I have problem with touchscreen, it works well as mouse but there is significant non-linearity towards borders hence I try to calibrate using ts_calibrate which generates /etc/pointercal file. I cannot google how to persuade system to reuse calibration data to linearize movement. Ideas about xorg.conf or xinput do not help (btw: xorg.conf does not exist anymore?)

Is normal the touchscreen is unsensitive 1-2mm around edge, i.e. is hard to point there using ts_test ? Maybe wrong piece.

Thanks in advance