I have now measured the whole thing on IONOS with Cloudron 10.0.4, and the cause is clear.
It is on the IONOS side, but Cloudron hides the part that shows it.
Short version: on IONOS, overwriting (and deleting) an object costs about 24 seconds per GiB, handled synchronously before the response. Above roughly 25 GiB that exceeds the 600 s timeout of the proxy in front of their S3 service. The AWS SDK then silently repeats the CompleteMultipartUpload, one attempt answers 200 with an empty ETag, and afterwards the object is listed but its data can not be read. The rotate copy then fails with exactly the NoSuchKey from the first post.
@dsp76, three things would help:
In the log of a failed backup task: is there a long gap (around 10, 20 or 30 minutes) between the last "Uploading backup …" line and "upload completed"?
How large are the other apps' snapshots? By these measurements, the problem should only affect apps above roughly 25 GiB, which would explain why only your largest app fails.
Can the first MiB of the current snapshot still be downloaded, or does that return NoSuchKey? For example: aws s3api get-object --bucket <bucket> --key <prefix>/snapshot/app_c08ad55d-….tar.gz.enc --range bytes=0-1048575 --endpoint-url <your IONOS endpoint> /tmp/snapshot-test.bin
Below is a separate summary for IONOS support with all request IDs.
For IONOS support (all times UTC, 2026-09-11)
Hello IONOS team,
we have measured this with Cloudron's own S3 code and logged every request with x-amz-request-id. There are two separate issues: the runtime of an overwrite, and an object that is confirmed but unreadable afterwards.
Client and test setup
Endpoint https://s3.eu-central-3.ionoscloud.com, region de, virtual-hosted-style requests, AWS SDK for JavaScript v3 (@aws-sdk/client-s3 3.1116.0), Cloudron 10.0.4, one client host
Buckets repro-15914, repro-15914-b, repro-15914-c, repro-15914-d; objects of random data uploaded as multipart, 3 parts in parallel
1. CompleteMultipartUpload of an overwrite scales with the size of the object being replaced
Case
CompleteMultipartUpload
Key does not exist yet (create), 0.1 GiB to 39 GiB
under 1 s in every case
Key already exists (overwrite)
about 23.5 s per GiB of the old object
DeleteObject on such an object
about 25 s per GiB
Independent of the part size (50, 100 and 250 MiB parts at the same size give the same time) and of the bucket. Reproducible cheaply: create a 3.2 GiB object and overwrite it, which takes about 75 s instead of about 0.2 s. Occasionally, in 3 of about 34 operations, an overwrite or delete was fast (0.2–0.5 s).
Question: why is this work done synchronously before the response, and what happens with it after 600 s? A proxy in front of the service answers with 504 Gateway Time-out (HTML, no S3 headers, no request ID) after exactly 600.0 s. For comparison, AWS S3 sends the 200 header early for long-running completions and keeps the connection alive with whitespace. source: https://docs.aws.amazon.com/AmazonS3/latest/API/API_CompleteMultipartUpload.html
2. Above 600 s the object ends up unreadable
Bucket repro-15914-d, key repro-15914/snapshot/app_p2-s40000-r1.tar.gz.enc, 41,943,040,000 bytes in 800 parts, upload 2~C7vvA9XH1m0gX5ETzPptO6piVDoqJKw:
Sent
Request
Response
x-amz-request-id
22:16:20.100
CompleteMultipartUpload, attempt 1
504 after 600.07 s
none
22:26:40.176
CompleteMultipartUpload, attempt 2
504 after 600.06 s
none
22:37:00.241
CompleteMultipartUpload, attempt 3
200 in 78 ms, body contains <ETag></ETag>
tx00000898b3e6a0332a144-006aa4828c-810022444-eu-central-3
22:37:00.328
HeadObject
200, 41943040000 bytes, ETag "d6198b07dbf3a8ecd1f840d8b24c7c35-800", Last-Modified 22:26:40
tx0000019e93fb95908b459-006aa4828c-809736856-eu-central-3
22:37:00.478
UploadPartCopy part 1, bytes=0-1073741823
404 NoSuchKey, empty <Message>
tx000009e4ad2fa8b99db77-006aa4828c-809736856-eu-central-3
22:37:00.483
UploadPartCopy part 2
404 NoSuchKey
tx00000fe72582a902f5490-006aa4828c-807519665-eu-central-3
22:37:00.530
UploadPartCopy part 3
404 NoSuchUpload (our client had already aborted the destination upload)
tx00000d35fc6d29c7099a6-006aa4828c-809730471-eu-central-3
22:37:01.068
GET bytes=0-1048575
404 NoSuchKey
tx00000849e27e44423877a-006aa4828d-797521041-eu-central-3
22:37:01.110
GET bytes=20971520000-20972568575
404 NoSuchKey
tx000002052bd3daec1d0ba-006aa4828d-809730471-eu-central-3
22:37:01.197
GET bytes=41941991424-41943039999
206, 1048576 bytes
tx00000ad11ad4192c75825-006aa4828d-803482478-eu-central-3
22:40:31
the same three ranges again
404 / 404 / 206, unchanged
tx0000095e483f0c394dbf5-…, tx0000017020a5bb1e46bd8-…, tx0000018734af690b0297b-…
Control in the same bucket: repro-15914/repro/2026-09-11T21-50-54-233Z/app_repro-15914_v1.tar.gz.enc (39 GiB, created by a server-side copy) returns 206 for all three ranges at 22:40:31.
The same happened earlier in bucket repro-15914 with a 72.6 GB object: three 504s, then 200 with an empty ETag, and after that all three ranges returned NoSuchKey, still 33 minutes later. That object is still in the bucket for you to look at, key repro-15914/snapshot/app_repro-15914.tar.gz.enc, ETag "252d72dfd55e5f6b8799cb56a64339b3-1385", along with an intact control object.
Just to make sure this is not a timing issue and the large object might now readable:
All three ranges of the first manual object return NoSuchKey:
Range
Result
x-amz-request-id
bytes=0-1048575
404 NoSuchKey
tx00000760487e9eeddc8f0-006aa4a32b-809730471-eu-central-3
bytes=36304322560-36305371135
404 NoSuchKey
tx000008f860d7695a5e683-006aa4a32b-803482478-eu-central-3
bytes=72607596544-72608645119
404 NoSuchKey
tx0000037d2d2c104ca6b58-006aa4a32b-803482478-eu-central-3
HeadObject still claims the object is fine: HTTP 200, 72,608,645,120 bytes, ETag "252d72dfd55e5f6b8799cb56a64339b3-1385", Last-Modified 14:49:28, identical to 10 hours ago (tx0000095cf0eba4266169e-006aa4a32b-799478461-eu-central-3).
Questions
Why does CompleteMultipartUpload of an overwrite take about 24 s per GiB, and is the 504 produced by a proxy with a 600 s timeout?
Attempt 3 answered 200 with an empty ETag. Which request actually completed the upload? The object's Last-Modified matches attempt 2, which received a 504.
Why is the object listed and returned by HeadObject, while GET and UploadPartCopy answer NoSuchKey on several gateway hosts, unchanged minutes later? Is the data lost, and can it be recovered?
Is the empty ETag in the CompleteMultipartUpload response a reliable marker on your side that the object was not stored correctly?
You mentioned requests referring to an upload ID that no longer exists. In our logs the only upload IDs sent more than once belong to the repeated CompleteMultipartUpload attempts; the part 3 NoSuchUpload above comes from our own abort. Could those be the requests you found?
The affected objects are kept in repro-15914 and repro-15914-d.
If needed, I can provide the full log files of each attempt of reproducing this.