How to reconstruct my own points using Gplates?

Probably the easiest way is to follow Christian Heine’s advice (referenced from here). That is:

  1. Store your points in a text file as two columns (longitude and latitude) and then give it a ‘.gmt’ extension.
  2. Load it into GPlates.
  3. Assign plate IDs to your points after loading a reconstruction model.

…as covered in the above link. Then your points will reconstruct in GPlates.

An alternative to part (1) above is to use a script convert_xy_to_gplates.py (see here for details).
But note that PlateTectonicTools is now a part of GPlately (which means using, eg, import gplately; gplately.ptt.<attribute> instead of import ptt; ptt.<attribute>). Or when using GPlately command-line tools, get help with python -m gplately --help and more specifically python -m gplately convert_xy_to_gplates --help.