diff --git a/CHANGELOG.md b/CHANGELOG.md
index 05a0bb006..3419ba5c6 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -18,6 +18,7 @@ Special thanks to the following for their contributions to the release:
 - [PR #1401](https://github.com/nf-core/rnaseq/pull/1401) - Template update for nf-core/tools v3.0.1
 - [PR #1405](https://github.com/nf-core/rnaseq/pull/1405) - Fix bad variable name in subworkflow
 - [PR #1406](https://github.com/nf-core/rnaseq/pull/1406) - Keep only one samplesheetToList
+- [PR #1410](https://github.com/nf-core/rnaseq/pull/1410) - Fix issues caused by empty versions from trimming subworkflows
 
 ### Parameters
 
diff --git a/modules.json b/modules.json
index ffcdcaf40..6a263bfc8 100644
--- a/modules.json
+++ b/modules.json
@@ -327,17 +327,17 @@
                     },
                     "fastq_fastqc_umitools_fastp": {
                         "branch": "master",
-                        "git_sha": "46eca555142d6e597729fcb682adcc791796f514",
+                        "git_sha": "4026bab16a91b1b0b18d80ff465819ca725f33fd",
                         "installed_by": ["fastq_qc_trim_filter_setstrandedness", "subworkflows"]
                     },
                     "fastq_fastqc_umitools_trimgalore": {
                         "branch": "master",
-                        "git_sha": "53fcc37e256ea30818fb793bbe98b63e4a40deb8",
+                        "git_sha": "4026bab16a91b1b0b18d80ff465819ca725f33fd",
                         "installed_by": ["fastq_qc_trim_filter_setstrandedness", "subworkflows"]
                     },
                     "fastq_qc_trim_filter_setstrandedness": {
                         "branch": "master",
-                        "git_sha": "aef0e7467478130e861365232c3c4cc3247938ec",
+                        "git_sha": "9082d6440bdffbb4f5d9bd9d753361933b3febcb",
                         "installed_by": ["subworkflows"]
                     },
                     "fastq_subsample_fq_salmon": {
diff --git a/subworkflows/nf-core/fastq_fastqc_umitools_fastp/main.nf b/subworkflows/nf-core/fastq_fastqc_umitools_fastp/main.nf
index ab6cbb320..9c355a5e3 100644
--- a/subworkflows/nf-core/fastq_fastqc_umitools_fastp/main.nf
+++ b/subworkflows/nf-core/fastq_fastqc_umitools_fastp/main.nf
@@ -160,5 +160,5 @@ workflow FASTQ_FASTQC_UMITOOLS_FASTP {
     fastqc_trim_html   // channel: [ val(meta), [ html ] ]
     fastqc_trim_zip    // channel: [ val(meta), [ zip ] ]
 
-    versions = ch_versions.ifEmpty(null) // channel: [ versions.yml ]
+    versions = ch_versions // channel: [ versions.yml ]
 }
diff --git a/subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/main.nf b/subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/main.nf
index db2e5b329..4ffc36984 100644
--- a/subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/main.nf
+++ b/subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/main.nf
@@ -119,5 +119,5 @@ workflow FASTQ_FASTQC_UMITOOLS_TRIMGALORE {
     trim_log           // channel: [ val(meta), [ txt ] ]
     trim_read_count    // channel: [ val(meta), val(count) ]
 
-    versions = ch_versions.ifEmpty(null) // channel: [ versions.yml ]
+    versions = ch_versions // channel: [ versions.yml ]
 }
diff --git a/subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/tests/main.nf.test.snap b/subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/tests/main.nf.test.snap
index 264ffb222..46bf3acf2 100644
--- a/subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/tests/main.nf.test.snap
+++ b/subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/tests/main.nf.test.snap
@@ -377,7 +377,7 @@
                 
             ],
             [
-                null
+                
             ]
         ],
         "meta": {
@@ -521,4 +521,4 @@
         },
         "timestamp": "2024-07-22T17:06:09.844235"
     }
-}
\ No newline at end of file
+}