<p>Are there any good database schema comparison tools out there that support Sybase SQL Anywhere version 10?  I've seen a litany of them for SQL Server, a few for MySQL and Oracle, but nothing that supports SQL Anywhere correctly.  </p>

<p>I tried using DB Solo, but it turned all my non-unique indexes into unique ones, and I didn't see any options to change that.</p>

SQLDelta
is awesome. It is for SQL Server. I've used it with SQL 2000 and 2005. It will compare stored procedures, tables, views, permissions, indexes, etc. It can also compare data between tables I believe. You can sync the changes or generate SQL Scripts for later use. I use it often to script out db changes in development to production.
Ah...missed the Sybase remark. Not sure if SQLDelta can talk to it..but I'd probably give it a shot since Sybase is similar.