I bumped on this blogpost:
SAGA GIS Intersect Line-Polygon
~15min — acceptable but still 7x slower than ArcGIS and produces wrong results? The images below show SAGA GIS Intersect(with dangles removed) and same area with ArcGIS Intersect – Clearly SAGA did not intersect the line and polygon correctly as there should be no connection of the lines. These errors are scattered throughout the new output!!! In addition Line-Polygon does not retain the polygon intersect attributes to the line unlike the other methods mentioned above…
Full data to test is available.