Nightshade

					
EX missions
Mission Mode stage 1 – Collect 3 secret clan coins.

Mission Mode stage 2 – Collect 14 secret clan coins.

Mission Mode stage 3 – Collect 24 secret clan coins.

Mission Mode stage 4 – Collect 35 secret clan coins.

Mission Mode stage 5 – Collect 45 secret clan coins.

Mission Mode stage 6 – Collect 56 secret clan coins.

Mission Mode stage 7 – Collect 68 secret clan coins.

Mission Mode stage 8 – Collect 80 secret clan coins.

Survival Mode stage 1 – Collect 10 secret clan coins.

Survival Mode stage 2 – Collect 21 secret clan coins.

Survival Mode stage 3 – Collect 31 secret clan coins.

Survival Mode stage 4 – Collect 42 secret clan coins.

Survival Mode stage 5 – Collect 52 secret clan coins.

Survival Mode stage 6 – Collect 64 secret clan coins.

Survival Mode stage 7 – Collect 76 secret clan coins.

Survival Mode stage 8 – Collect 88 secret clan coins.

Time Attack Mode stage 1 – Collect 7 secret clan coins.

Time Attack Mode stage 2 – Collect 17 secret clan coins.

Time Attack Mode stage 3 – Collect 28 secret clan coins.

Time Attack Mode stage 4 – Collect 38 secret clan coins.

Time Attack Mode stage 5 – Collect 49 secret clan coins.

Time Attack Mode stage 6 – Collect 60 secret clan coins.

Time Attack Mode stage 7 – Collect 72 secret clan coins.

Time Attack Mode stage 8 – Collect 84 secret clan coins.
Unlock costumes
Hibana's 2nd costume – Beat the game on normal mode.

Hibana's 3rd costume – Beat the game on hard mode.

Hisui's 2nd costume – Collect all 88 Clan Coins
Unlock characters
Hisui – Beat the game on easy mode.
Hotsuma JP version – Beat normal mode while having a JP version Shinobi game save in your memory card. The Shinobi save needs to have finished the game at least once.
Joe Musashi – Beat 88 stages in the game altogether. There's a counter at the bottom of the page in the rank screen after you have completed a mission.