I would probably think twice before using anything based on EncFS. See this audit for a lot of detail:
https://defuse.ca/audits/encfs.htm
https://defuse.ca/audits/encfs.htm https://defuse.ca/audits/ecryptfs.htm
Truecrypt is a different beast (acts as the basis blob or blockdev for a file system) and has done significantly better on more rigorous audits: https://opencryptoaudit.org/reports/
If the above (grand-parent) is the worst tptacek says about encfs, I would argue that you are in decent shape.
This "auditability" seems to me a strength worth nurturing.
[0] Where "by-and-by" refers to the usual superhuman app-sec standards in which "10 hours" translate into actual, meaningful work.