Trusteer v3.6.1.1507.44 (now) works with El Capitán.
FWIW 1. The auto updater did not indicate the availability of the update, but it is available from/through the IBM site. When I got there, it suggested I get the DL via a link they had to the bank that referred me (USAA). And that's what I did.
FWIW 2. At the conclusion of the install, the Trusteer address bar icon did not appear, even though it was enabled and I relaunched my browser as directed. For me, to view the icon, I needed to Restart the OS. Then, sweetness and light.
FWIW 3. USAA is still not listed amongst the Trusted Websites.
FWIW 4. I sleep tight knowing that IBM writes the code for the FAA.