 If you liked
Soukyuu no Fafner: Dead Aggressor
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 ...then you might like
Buddy Complex
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Similarity :
Both anime featuring a unique system which enables two or more users to share experiences, abilities, and skills; all while increasing the abilities and output of theirmake their mecha units as well.
Siegfried system (Soukyuu no Fafner) :
Operated by Minashiro Soushi
This system taken to the extreme, not only do the pilots synchronize with their Fafner units, but they are also linked with Soushi mind via the Siegfried system, which allows him to guide them while forcing him to feel all the pain they feel.
Coupling system (Buddy Complex) :
This system allow two Valiancer pilot connected their mind which can make unlock special power such combine their
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Recommended by SSSS_Shunaria
Both star a main character who's everyday life is changed due to extreme circumstances, leading to them becoming mecha pilots. They also both have a fairly noticable amount of BL undertones/fujobaiting between the MC and the supporting lead, but neither goes all the way with this due to plot reasons.
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Recommended by FinalReality56