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Is it possible that when you built the workspace for the merged install directory the ROS 1 environment was not sourced?
For the ros1_bridge libraries and binaries to be built, there must be some ROS 1 libraries and messages available in the environment. There are instructions in the README: https://github.com/ros2/ros1_bridge#building-the-bridge-from-source
I was able to reproduce the "missing" files in both merged and isolated install spaces and produce complete installations of the ros1_bridge in both when sourcing a ROS 1 workspace.