The biggest rail workers union had repeated calls for Arriva Rail North to be stripped of its franchise after the company cancelled scores of services on Sunday.
The operator said it was removing some services on several parts of the North West network so that customers can have "more certainty in planning their journeys".
About 80 services will not run out of a total of 1,500 train services today following similar disruption last weekend.
The areas most affected will be Liverpool, Greater Manchester and Lancashire where Arriva (Northern) said ongoing engineering projects have caused severe difficulties around the short-notice scheduling of train crews.
A spokesman for Northern, said:
Rail, Maritime and Transport union general secretary Mick Cash said: