Updating the DVR to the latest 2019.03 pre-release will fix the alignment issue causing a couple seconds of content to be missed.
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I found the latest (Beta) version of Channels DVR comskip to be quite accurate.
I don't usually use any of my Channels clients to view, but instead use the DVR UI and VRD to remove comms for archiving to my NAS.
I find it quite accurate, within a few frames (seconds), when it's accurate.
There are some times where it misses, but it has always erred by leaving comm blocks in instead of removing show blocks and I appreciate that.
This makes my job easier by allowing me to remove comm blocks instead of figuring out and adding show blocks.
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You could try a wayz approach to skipping commercials. As users manually skip commercials you could upload that data and use it with machine learning to help the user community find the commercial breaks. A user who watches the show later would benefit from better and more accurate commercial detection using the knowledge and practice of other users.
Maybe there is some open source facial recognition. If the faces detected are characters in the show... Another way may be to examine a spectrograph f the last few frames to look for the same mix and intensity of colors.. volume is another indicator of commercials (they always seem louder).. Any one of these is unreliable, but taken together they could provide a good probability of the end of commercials.
Has anyone been doing a lot of commercial edits to their library? We are looking for a couple volunteers who have a lot of recordings marked and want to submit their data to help us train our commercial detector. You will need a Mac with homebrew installed. PM if you are interested.
Appears that Discovery channel found a way to fool comskip.
4:45 commercial block played in a PIP window so logo never disappears.
Discovery:
Discovering new ways to annoy viewers.
If I have to stick a square of black tape to the screen to watch TV - I'll just read books, thanks.
(I guess even VRD has no ammo for that enemy)
lol
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Yeah, that'd be annoying.
Reminds me of a conversation in which a marketer was saying "we're going to start doing this, that and this other thing to overcome people skipping or otherwise ignoring commercials." To which I replied: "Become annoying enough, and people will just stop watching. Period. Then where will you be?"
One of the things he promised, and they've been doing it for a few years, is throwing adverts up in the corner, in bottom banners, or as crawls during the programming. So far it's been limited to stations/networks advertising for themselves, and generally only at program resumption. I figure eventually product adverts will appear in those--and probably eventually smack in the middle of programming. About that time I think I'll have to abandon TV entirely.
I recorded 3 Seasons of Channel Zero last Halloween from The SyFy Channel. They had their own 'program' running in the lower third THE WHOLE TIME! It was so dam annoying I couldn't watch it. I downloaded those 3 seasons 'from somewhere else'.
That's what this consumer does when things go horribly stupid.
Actually it does.
I use it when I want to archive something or fix glitches in something I want to watch.
I was surprised to see the "scene marks" (red vertical lines) delineating the PIP commerical in VRD.
I just marked them to cut that portion and watched the show, skipping that part that was all PIP commercial (except for some text on the left side that explained about trees, deer, etc.) Not really part of the show.
Edited to say this isn't part of Channels DVR, except for it producing an edl file as part of its EDL hack and a VRD Project output file by my hacking the comskip.ini file to use VRD to view this. VRD is a Windows only program that I use for video editing things I will archive, or to clean up glitches in transport stream files recorded by various DVR's, like an HDHomeRum or TiVo.
Right now I'm recording random things to test comskip and transcoding on my new nas.
Just tried to edit the blocks on this recording using Channels DVR Web UI and it did allow me to select that PIP block that was marked as a show segment and make it a commercial segment.
Awesome 
How do I get this beta to test it out? I'm already using the autoskip beta.
On your Channels DVR Web UI, hold down shift key while clicking the Check For Update button
Is there a way to install a beta version from a mobile device?
I don't know the normal command to do it, but I know this will work if you can ssh in but it's only for the current version.
curl -XPUT http://127.0.0.1:8089/updater/check/2019.03.15.1810
Normally I use VNC to log in and use that to shift+click on my iPhone or iPad.
That worked! Are the releases listed somewhere so that I could know the version number in the future?
When you find out, let us know 
It's like rolling the dice, never know what will come up or why.
Just found 2019.03.15.1810 now
If you want to be on the latest beta, use:
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Would be nice if you could post what's in the latest version of beta/prerelease to give us a heads-up on what to expect?
I'm running a modified comskip.ini and have to keep checking each beta to see if the default changed to update my override copy in the data directory.
In order to see what changed I have to rename my override comskip.ini and run comskip to get a copy of the new default ini file in the logs directory to see if it has changed.
After doing this, does one still need to 'SHIFT' click on check for updates, or will a non-SHIFT'd check for updates grab the latest beta?
No clicking required if you use the curl command.
We don't publish changelogs for beta builds as many things are being tested rapidly and it's not feasible to write accurate notes.
As far as comskip we don't anticipate any more changes, and as mentioned earlier we will likely be removing comskip in the future.