Thank you for sharing the report. I find the project very interesting! Is it a glacier in Switzerland?
I had a close look at the report and notice that there were 2 camera models detected in the project and that each calibrated a bit differently. Since the camera parameters are not the same this could explain the behavior that you see; projected crosses on the images vary.
At the moment I would recommend the following:
- Processing the flights separately in subprojects and marking the GCPs and MTP in the subprojects.
- Making sure that, before merging the projects, all the subprojects are processed successfully and there are no issues present, e.g. bad camera optimization, uncalibrated camera or multiple blocks. You can use the All-Prior calibration option if the camera optimization drifts too far from the initial value.
- Merging the subprojects as described in the How to merge projects article.
If you will still face the same issue after using the proposed workflow, please upload the project on the cloud and I will investigate further.