This was a breaking change in v4.09 where MySql and Sqlite now treats Guids as CHAR(36), where special casing of Guids was removed for MySQL and Sqlite providers so that the same SQL LINQ expression could work across all providers.
As inferred from the namespace ServiceStack.Text.JsConfig
only applies to text serialization, not OrmLite. There's no easy override other than to use a custom MySqlDialectProvider that overrides OrmLite's MySqlDialectProvider to add the special-casing back in. The recommendation however is to upgrade data to use the new (natural) Guid.ToString()
format;