You have provided plenty of help to Freedom, and this has earned you the respect of Freedom fighters and their friends. But keep in mind that not everyone in the Zone is a Freedom fan.
The four following quests must be completed in Freedom's favor:
- Duty warehouse: Give Morgan's PDA to Loki
- Duty History: Give General Tachenko's PDA to Loki
- Monolith survivors: Have Strider and his group recruited into Freedom
- In Search of Magpie: Inform Loki about Flint
The negative effect (Nitro's price hike) can be more or less completely negated by completing the Radio equipment quest before siding with Freedom. Duty squads will not be hostile if the player hasn't killed any Duty members.