diff --git a/doc/configuration.txt b/doc/configuration.txt
index 97ff2e499..87f35e984 100644
--- a/doc/configuration.txt
+++ b/doc/configuration.txt
@@ -12560,10 +12560,15 @@ crt <cert>
   connecting with "ecdsa.example.com" will only be able to use ECDSA cipher
   suites. With BoringSSL and Openssl >= 1.1.1 multi-cert is natively supported,
   no need to bundle certificates. ECDSA certificate will be preferred if client
-  support it.
+  supports it.
 
   If a directory name is given as the <cert> argument, haproxy will
   automatically search and load bundled files in that directory.
+  It is however recommended to move away from bundle loading, especially if you
+  want to use the runtime API to load new certificate which does not support
+  bundle. A recommended way to migrate is to set `ssl-load-extra-file`
+  parameter to `none` in global config so that each certificate is loaded as a
+  single one.
 
   OSCP files (.ocsp) and issuer files (.issuer) are supported with multi-cert
   bundling. Each certificate can have its own .ocsp and .issuer file. At this
diff --git a/doc/management.txt b/doc/management.txt
index adbad95d3..42e8ddbca 100644
--- a/doc/management.txt
+++ b/doc/management.txt
@@ -1725,6 +1725,10 @@ new ssl cert <filename>
   Create a new empty SSL certificate store to be filled with a certificate and
   added to a directory or a crt-list. This command should be used in
   combination with "set ssl cert" and "add ssl crt-list".
+  Note that bundle certificates are not supported; it is recommended to use
+  `ssl-load-extra-file none` in global config to avoid loading certificates as
+  bundle and then mixing with single certificates in the runtime API. This will
+  avoid confusion, especailly when it comes to the `commit` command.
 
 prompt
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