SmartModem 9600
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The Hayes V-Series SmartModem 9600 (also known as the Express 96) uses Advanced Hayes Proprietary 9600 Communications. Due to the nonstandard and proprietary nature of the modems (they are not V.32 compatible), Apple decided not to include a CCL for them.
An Express 96 can only communicate at 9600 baud with another Express 96. As you discovered, use of the "Hayes Ultra 96" CCL limits communications to 2400 baud between Express 96 modems. A "CCL.Hayes V9600" CCL has been developed internally for use with the Express 96.
Tool for Custom CCLs
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The Modem Workshop HyperCard stack used to develop AppleTalk Remote Access CCLs is available for customers through APDA.