Starting in Sequence 06, the ledger next to every Harbormaster, including Faulkner, can be used to purchase upgrades for the Aquila. Although extremely expensive, these upgrades can help with completing the naval optional objectives for 100% synchronization.
| Upgrade | Cost | Effect |
|---|---|---|
| Wooden Hull Reinforcements | 13,000 | Increases the ship's resilience, by reducing damage sustained during enemy attacks. |
| Extra Cannon | 2,500 | Increases the amount of damage dealt during broadsides. |
| Heat Shot | 19,000 | New ammunition: burning cannonballs that are great against Man-of-war vessels. |
| Grapeshot | 17,000 | New ammunition: chained cannonballs that break masts and disable a ships movement. |
| Improved Rudder | 11,000 | Improves maneuverability. |
| Naval Ram | 8,000 | Increases the amount of damage dealt when raming smaller vessels. |
| Piercing Round | 9,000 | New ammunition: increases the swivel guns damage. |
| Iron Hull Reinforcements | 25,000 | Further increases the ship's defenses after you have bought the Wooden Hull. |


