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In GA a part of the visits from Internal Pages shows under home page.

In GA a part of the visits from Internal Pages shows under home page.

     
6:15 pm on Aug 29, 2019 (gmt 0)

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Home page organic traffic of our website has suddenly started increasing multiple times since last 2-3 days and the traffic on the internal pages has dropped. Over all traffic drops by 3%-4%. We faced the similar issue last month. That time google was throwing the home page URL in MOBILE search results for internal pages of our site. Title in search results snippet was correct but surprisingly the URL was of the home page and our entire organic mobile traffic was shifted to home page and overall we saw a drop of approx 25%. We later realised that one of the JS script to deflect scrapping activity caused this issue. We removed it and site started behaving normally on Google.

This time we see that both desktop and mobile traffic is slipping from internal pages and dont see any issues in the search results. Total SEO traffic remains the same. Couldn't find any other possible issue. Site generates 10s of millions of organic visits every month. Can anyone please give any help/suggestions ?
9:14 pm on Aug 30, 2019 (gmt 0)

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1) Under "View Settings", "Default Page", you can define there, what the different forms of your home page are...
What is entered there?

2) If your ranking listing's URL is redirected upon landing, and you strip off (or add) appended params, meaning they hit the page Google sent them too, Analytics traffic script fires, then you redirect to same page with slightly different appended params or dynamic content, and the page reloads, this time the script may see the redirect landing as a completely different visit. Check redirects.

3) Are you using an Ajax pile or dynamic content serving on the internal pages? Any frames on the intended URL served by G?

4) When you click on an organic link, and landing resolves, is it the same URL that a visitor could navigate to through nav links (not site search links)?
5:09 am on Sept 4, 2019 (gmt 0)

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Thanks for replying @RhinoFish. There is no dynamic content, Ajax pile or any frames/iframes used. The organic result link takes the user to right page and there are no redirects involved. Are you referring to "Default Page Setting' in GSC? It points to the right page.
We noticed something strange in GSC. Home page impressions have come down but CTR has improved drastically, which is not the possibility.
9:46 pm on Sept 8, 2019 (gmt 0)

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For Default Page Setting, I meant in Analytics.
Go to Admin, View, View Settings, Default Page (https://support.google.com/analytics/answer/1009675)

Please give me ballpark CTR numbers (and if you're talking about a subset of keywords, not all traffic, tell me whether it is your domain name traffic or unbranded).

Please consider using an HTTP Sniffer to follow the trail from organic listing to resolved landing page, to see if any weird hops or redirects are happening.
I know you said no redirects are involved, but this issue sounds like it is likely a redirect issue, and a sniffer will tell you more.

One more thing, machines can become infected with adware (and toolbars that redirect URLs), and they can snaggle data up badly.
This is another reason why I'm suggesting you use an HTTP Sniffer to walk down the URL hand-offs.
You can use a junior "sniffer" by googling "track online redirects" or "redirect trace" sort of thing.