Replace most context.TODO calls, comment on other Background and TODOs

[michel-laterman]

What is the problem this PR solves?

Replace use of context.TODO and context.Background from most use cases

Design Checklist

• I have ensured my design is stateless and will work when multiple fleet-server instances are behind a load balancer.
• I have or intend to scale test my changes, ensuring it will work reliably with 100K+ agents connected.
• I have included fail safe mechanisms to limit the load on fleet-server: rate limiting, circuit breakers, caching, load shedding, etc.

Checklist

• I have commented my code, particularly in hard-to-understand areas
• I have made corresponding changes to the documentation
• I have made corresponding change to the default configuration files
• I have added tests that prove my fix is effective or that my feature works
• I have added an entry in ./changelog/fragments using the changelog tool

Related issues

• Closes context.TODO and loggers #3087

[mergify]

This pull request does not have a backport label. Could you fix it @michel-laterman? 🙏
To fixup this pull request, you need to add the backport labels for the needed
branches, such as:

• backport-./d./d is the label to automatically backport to the 8./d branch. /d is the digit

[mergify]

backport-8.x has been added to help with the transition to the new branch 8.x.
If you don't need it please use backport-skip label and remove the backport-8.x label.

[michel-laterman]

Looks like there is a flaky test: #4170

[mergify]

This pull request is now in conflicts. Could you fix it @michel-laterman? 🙏
To fixup this pull request, you can check out it locally. See documentation: https://help.github.com/articles/checking-out-pull-requests-locally/

git fetch upstream
git checkout -b todo-log upstream/todo-log
git merge upstream/main
git push upstream todo-log

[michel-laterman]

Integration test is flaky, fix in #4171

[michel-laterman]

buildkite test this

[elastic-sonarqube]

Quality Gate passed

Issues
4 New issues
1 Fixed issue
0 Accepted issues

Measures
0 Security Hotspots
74.6% Coverage on New Code
0.0% Duplication on New Code

See analysis details on SonarQube