I may be misremembering, but the article you link to reinforces my recollection that BeOS ran up against the bulk licensing agreements between Microsoft and OEMs, which forbade to sell dual-boot machines.
However unfortunate that may have been, it doesn't directly bear on the question of bundling linux software on distribution media.
How come? Microsoft's Windows license given for OEMs made it illegal to distribute totally unrelated piece of code on the same medium unless it was licensed in some quite specific way - the same as with Linux kernel and linux programs. In case of Windows license only allows programs written for Windows but not separate OSes, in case of Linux license allows not only Linux programs but also any "mere aggregation" software. If Microsoft's license can stop BeOS inclusion then Linux license can stop any other software inclusion.
You can only redistribute proprietary programs (and FOSS programs with GPL-incompatible licenses) with Linux because GPL gave you explicit permission. Copyright alone does not give you such rights.
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