One section (https://trac.handbrake.fr/wiki/SurroundSoundGuide)on the says:
So I have a DVD with two audio options listed: 5.1 ch & Dolby Surround.The simplest method is using Dolby Pro Logic II. This is the default behavior for HandBrake. If you feed HandBrake an Dolby Digital AC3 or Digital Theater System 5.1 sound track and tell it to convert using AAC, it will default to converting or "downmixing" the track to Dolby Pro Logic II in an AAC track. This will sound fine on both stereo and surround audio systems and will play in pretty much anything. If your DVD already contains Dolby Pro Logic audio, also known as Dolby Surround, it will be preserved. If you wish, you can use Dolby Pro Logic I instead of II, by selecting "Dolby Surround" from the Track Mix drop-down menu. Be aware that, due to technical concerns, Dolby Pro Logic II is currently created as 5.0 sound. This means there is no separate subwoofer channel. Adding the sub channel can cause serious distortion, depending on how the DVD's audio was mastered.
If I do the 5.1 downmixed to PLII will all channels including the subwoofer be preserved or not?
If I choose Dolby Surround and "downmix" it to Dolby Surround everything is preserved and it will sound good in both stereo and surround, right?