I did some digging and found the error is coming from this code in flvenv.c 
line 921.

  if (pkt->dts < -flv->delay) {
        av_log(s, AV_LOG_WARNING,
               "Packets are not in the proper order with respect to DTS\n");
        return AVERROR(EINVAL);

flv is a pointer to  FLVContext from AVFormatContext->priv_data.

Looks like the avformat_write_header()/avformat_init_output uses the state of 
the muxer at the last run even if the AVFormatContext has been freed and 
reallocated.
So how do I get the FLVContext to be initlized as if a fresh run. Or how do I 
free the old FLVContext so when avformat_write_header() initlizes the priv_data 
it is fresh.
________________________________
From: Libav-user <libav-user-boun...@ffmpeg.org> on behalf of william keeling 
<williamkeel...@hotmail.com>
Sent: Monday, March 1, 2021 2:32 PM
To: libav-user@ffmpeg.org <libav-user@ffmpeg.org>
Subject: [Libav-user] Reuse of format context after free and reallocate?


I have a program the creates flash format stream and is work the first time 
thru but when I process the second stream, I get DTS/PTS non monotonically 
errors.

After each stream I free and reallocate all contexts:

avcodec_free_context() of all streams video and audio

avformat_free_context()

avio_close()



What am I missing so the format context can be reallocate and used?



Thanks William
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