Why the Past Perfect is used in the selected items? Is it correct?

Top3” problems of projects:
* Delays
* More resources needed than planned
* The results are not achieved or incomplete

“Top4” causes:
* The goals, participators, terms, budget, etc. had not been agreed upon beforehand
* The difficulties of realization had not been considered in the plan (or there weren’t any plan at all). Failed to fulfill the plan.
* “Something” unexpected had happened
* New requirements caused the change of goals, terms, etc.