Is it true that we cannot activate Magician Navigation's effect (while in Graveyard) during Damage Step? I don't see it say anything like that.
For example, when subterror active their trap during damage step.
Yes, it cant. Only counter traps and cards that alter ATK/DEF can be activated during damage step.
But note that there are some cards that alter ATK/DEF but cannot be activated during damage step.
Example : Wall of Disruption, Winged Minion & Back-Up Rider
Quick-Play Spells and monster Quick Effects aren't just blanket allowed in the Damage Step. It's Counter Traps, ATK/DEF modifiers, Quick Effect monsters that negate activations and cards that say they can be used in the Damage Step. (Well, and Trigger(-like) effects, but they're not manually activated.)
Not sure why you posted that since nobody said anything to the contrary. The first replying anon was saying every Quick-Play and Quick Effect was usable in the Damage Step, I (the second replying anon) was correcting them.