Unfortunately the video has to be encoded using the same method and encoder settings etc or it can't be joined together. The same applies to audio. I don't mess around with TS files much but if MKVMergeGUI can't join them I'd suspect nothing will.
Video To Video Converter has a "join files" function you could try (under the tools menu). If that doesn't work you might have to re-encode the ts files you're wanting to join as one single encoding job. I'm pretty sure Video To Video Converter will let you join multiple input files together and output a single encoding job. If not, I'm fairly sure AnyVideoConverter can do it. I've no idea if AVIdemux can as I don't use it.
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