I wouldn't recommend this. You're likely to run into inflated Type II errors, but even if you are able to detect effects, how can you justify the reliability of the fit indices (TLI, ...) if you potentially have biased CIs from bootstrapping? I'd suggest trying Bayesian SEM in this case instead

When considering publication with a small sample size of 40 while using SEM with bootstrapping, it is crucial to choose journals that are receptive to studies with smaller samples and emphasize methodological rigor. Some journals, especially those focused on methodological advancements or specific fields like clinical psychology, may be more open to such studies. In your manuscript, it is important to provide a strong justification for the small sample size, explaining its appropriateness in your study context and highlighting the use of bootstrapping to address limitations. Transparency about the limitations, including the small sample size and its impact on the generalizability of findings, is essential. Report the bootstrapping results comprehensively, including confidence intervals and any differences from non-bootstrapped estimates. This transparency and methodological rigor will enhance the credibility of your study and its chances of being published.